{ "cells": [ { "cell_type": "markdown", "metadata": {}, "source": [ "# Breakpoint plotting" ] }, { "cell_type": "code", "execution_count": 1, "metadata": {}, "outputs": [ { "data": { "application/javascript": "(function(root) {\n function now() {\n return new Date();\n }\n\n var force = true;\n var py_version = '3.4.1'.replace('rc', '-rc.').replace('.dev', '-dev.');\n var reloading = false;\n var Bokeh = root.Bokeh;\n\n if (typeof (root._bokeh_timeout) === \"undefined\" || force) {\n root._bokeh_timeout = Date.now() + 5000;\n root._bokeh_failed_load = false;\n }\n\n function run_callbacks() {\n try {\n root._bokeh_onload_callbacks.forEach(function(callback) {\n if (callback != null)\n callback();\n });\n } finally {\n delete root._bokeh_onload_callbacks;\n }\n console.debug(\"Bokeh: all callbacks have finished\");\n }\n\n function load_libs(css_urls, js_urls, js_modules, js_exports, callback) {\n if (css_urls == null) css_urls = [];\n if (js_urls == null) js_urls = [];\n if (js_modules == null) js_modules = [];\n if (js_exports == null) js_exports = {};\n\n root._bokeh_onload_callbacks.push(callback);\n\n if (root._bokeh_is_loading > 0) {\n console.debug(\"Bokeh: BokehJS is being loaded, scheduling callback at\", now());\n return null;\n }\n if (js_urls.length === 0 && js_modules.length === 0 && Object.keys(js_exports).length === 0) {\n run_callbacks();\n return null;\n }\n if (!reloading) {\n console.debug(\"Bokeh: BokehJS not loaded, scheduling load and callback at\", now());\n }\n\n function on_load() {\n root._bokeh_is_loading--;\n if (root._bokeh_is_loading === 0) {\n console.debug(\"Bokeh: all BokehJS libraries/stylesheets loaded\");\n run_callbacks()\n }\n }\n window._bokeh_on_load = on_load\n\n function on_error() {\n console.error(\"failed to load \" + url);\n }\n\n var skip = [];\n if (window.requirejs) {\n window.requirejs.config({'packages': {}, 'paths': {}, 'shim': {}});\n root._bokeh_is_loading = css_urls.length + 0;\n } else {\n root._bokeh_is_loading = css_urls.length + js_urls.length + js_modules.length + Object.keys(js_exports).length;\n }\n\n var existing_stylesheets = []\n var links = document.getElementsByTagName('link')\n for (var i = 0; i < links.length; i++) {\n var link = links[i]\n if (link.href != null) {\n\texisting_stylesheets.push(link.href)\n }\n }\n for (var i = 0; i < css_urls.length; i++) {\n var url = css_urls[i];\n if (existing_stylesheets.indexOf(url) !== -1) {\n\ton_load()\n\tcontinue;\n }\n const element = document.createElement(\"link\");\n element.onload = on_load;\n element.onerror = on_error;\n element.rel = \"stylesheet\";\n element.type = \"text/css\";\n element.href = url;\n console.debug(\"Bokeh: injecting link tag for BokehJS stylesheet: \", url);\n document.body.appendChild(element);\n } var existing_scripts = []\n var scripts = document.getElementsByTagName('script')\n for (var i = 0; i < scripts.length; i++) {\n var script = scripts[i]\n if (script.src != null) {\n\texisting_scripts.push(script.src)\n }\n }\n for (var i = 0; i < js_urls.length; i++) {\n var url = js_urls[i];\n if (skip.indexOf(url) !== -1 || existing_scripts.indexOf(url) !== -1) {\n\tif (!window.requirejs) {\n\t on_load();\n\t}\n\tcontinue;\n }\n var element = document.createElement('script');\n element.onload = on_load;\n element.onerror = on_error;\n element.async = false;\n element.src = url;\n console.debug(\"Bokeh: injecting script tag for BokehJS library: \", url);\n document.head.appendChild(element);\n }\n for (var i = 0; i < js_modules.length; i++) {\n var url = js_modules[i];\n if (skip.indexOf(url) !== -1 || existing_scripts.indexOf(url) !== -1) {\n\tif (!window.requirejs) {\n\t on_load();\n\t}\n\tcontinue;\n }\n var element = document.createElement('script');\n element.onload = on_load;\n element.onerror = on_error;\n element.async = false;\n element.src = url;\n element.type = \"module\";\n console.debug(\"Bokeh: injecting script tag for BokehJS library: \", url);\n document.head.appendChild(element);\n }\n for (const name in js_exports) {\n var url = js_exports[name];\n if (skip.indexOf(url) >= 0 || root[name] != null) {\n\tif (!window.requirejs) {\n\t on_load();\n\t}\n\tcontinue;\n }\n var element = document.createElement('script');\n element.onerror = on_error;\n element.async = false;\n element.type = \"module\";\n console.debug(\"Bokeh: injecting script tag for BokehJS library: \", url);\n element.textContent = `\n import ${name} from \"${url}\"\n window.${name} = ${name}\n window._bokeh_on_load()\n `\n document.head.appendChild(element);\n }\n if (!js_urls.length && !js_modules.length) {\n on_load()\n }\n };\n\n function inject_raw_css(css) {\n const element = document.createElement(\"style\");\n element.appendChild(document.createTextNode(css));\n document.body.appendChild(element);\n }\n\n var js_urls = [\"https://cdn.bokeh.org/bokeh/release/bokeh-3.4.1.min.js\", \"https://cdn.bokeh.org/bokeh/release/bokeh-gl-3.4.1.min.js\", \"https://cdn.bokeh.org/bokeh/release/bokeh-widgets-3.4.1.min.js\", \"https://cdn.bokeh.org/bokeh/release/bokeh-tables-3.4.1.min.js\", \"https://cdn.holoviz.org/panel/1.4.2/dist/panel.min.js\"];\n var js_modules = [];\n var js_exports = {};\n var css_urls = [];\n var inline_js = [ function(Bokeh) {\n Bokeh.set_log_level(\"info\");\n },\nfunction(Bokeh) {} // ensure no trailing comma for IE\n ];\n\n function run_inline_js() {\n if ((root.Bokeh !== undefined) || (force === true)) {\n for (var i = 0; i < inline_js.length; i++) {\n\ttry {\n inline_js[i].call(root, root.Bokeh);\n\t} catch(e) {\n\t if (!reloading) {\n\t throw e;\n\t }\n\t}\n }\n // Cache old bokeh versions\n if (Bokeh != undefined && !reloading) {\n\tvar NewBokeh = root.Bokeh;\n\tif (Bokeh.versions === undefined) {\n\t Bokeh.versions = new Map();\n\t}\n\tif (NewBokeh.version !== Bokeh.version) {\n\t Bokeh.versions.set(NewBokeh.version, NewBokeh)\n\t}\n\troot.Bokeh = Bokeh;\n }} else if (Date.now() < root._bokeh_timeout) {\n setTimeout(run_inline_js, 100);\n } else if (!root._bokeh_failed_load) {\n console.log(\"Bokeh: BokehJS failed to load within specified timeout.\");\n root._bokeh_failed_load = true;\n }\n root._bokeh_is_initializing = false\n }\n\n function load_or_wait() {\n // Implement a backoff loop that tries to ensure we do not load multiple\n // versions of Bokeh and its dependencies at the same time.\n // In recent versions we use the root._bokeh_is_initializing flag\n // to determine whether there is an ongoing attempt to initialize\n // bokeh, however for backward compatibility we also try to ensure\n // that we do not start loading a newer (Panel>=1.0 and Bokeh>3) version\n // before older versions are fully initialized.\n if (root._bokeh_is_initializing && Date.now() > root._bokeh_timeout) {\n root._bokeh_is_initializing = false;\n root._bokeh_onload_callbacks = undefined;\n console.log(\"Bokeh: BokehJS was loaded multiple times but one version failed to initialize.\");\n load_or_wait();\n } else if (root._bokeh_is_initializing || (typeof root._bokeh_is_initializing === \"undefined\" && root._bokeh_onload_callbacks !== undefined)) {\n setTimeout(load_or_wait, 100);\n } else {\n root._bokeh_is_initializing = true\n root._bokeh_onload_callbacks = []\n var bokeh_loaded = Bokeh != null && (Bokeh.version === py_version || (Bokeh.versions !== undefined && Bokeh.versions.has(py_version)));\n if (!reloading && !bokeh_loaded) {\n\troot.Bokeh = undefined;\n }\n load_libs(css_urls, js_urls, js_modules, js_exports, function() {\n\tconsole.debug(\"Bokeh: BokehJS plotting callback run at\", now());\n\trun_inline_js();\n });\n }\n }\n // Give older versions of the autoload script a head-start to ensure\n // they initialize before we start loading newer version.\n setTimeout(load_or_wait, 100)\n}(window));", "application/vnd.holoviews_load.v0+json": "" }, "metadata": {}, "output_type": "display_data" }, { "data": { "application/javascript": "\nif ((window.PyViz === undefined) || (window.PyViz instanceof HTMLElement)) {\n window.PyViz = {comms: {}, comm_status:{}, kernels:{}, receivers: {}, plot_index: []}\n}\n\n\n function JupyterCommManager() {\n }\n\n JupyterCommManager.prototype.register_target = function(plot_id, comm_id, msg_handler) {\n if (window.comm_manager || ((window.Jupyter !== undefined) && (Jupyter.notebook.kernel != null))) {\n var comm_manager = window.comm_manager || Jupyter.notebook.kernel.comm_manager;\n comm_manager.register_target(comm_id, function(comm) {\n comm.on_msg(msg_handler);\n });\n } else if ((plot_id in window.PyViz.kernels) && (window.PyViz.kernels[plot_id])) {\n window.PyViz.kernels[plot_id].registerCommTarget(comm_id, function(comm) {\n comm.onMsg = msg_handler;\n });\n } else if (typeof google != 'undefined' && google.colab.kernel != null) {\n google.colab.kernel.comms.registerTarget(comm_id, (comm) => {\n var messages = comm.messages[Symbol.asyncIterator]();\n function processIteratorResult(result) {\n var message = result.value;\n console.log(message)\n var content = {data: message.data, comm_id};\n var buffers = []\n for (var buffer of message.buffers || []) {\n buffers.push(new DataView(buffer))\n }\n var metadata = message.metadata || {};\n var msg = {content, buffers, metadata}\n msg_handler(msg);\n return messages.next().then(processIteratorResult);\n }\n return messages.next().then(processIteratorResult);\n })\n }\n }\n\n JupyterCommManager.prototype.get_client_comm = function(plot_id, comm_id, msg_handler) {\n if (comm_id in window.PyViz.comms) {\n return window.PyViz.comms[comm_id];\n } else if (window.comm_manager || ((window.Jupyter !== undefined) && (Jupyter.notebook.kernel != null))) {\n var comm_manager = window.comm_manager || Jupyter.notebook.kernel.comm_manager;\n var comm = comm_manager.new_comm(comm_id, {}, {}, {}, comm_id);\n if (msg_handler) {\n comm.on_msg(msg_handler);\n }\n } else if ((plot_id in window.PyViz.kernels) && (window.PyViz.kernels[plot_id])) {\n var comm = window.PyViz.kernels[plot_id].connectToComm(comm_id);\n comm.open();\n if (msg_handler) {\n comm.onMsg = msg_handler;\n }\n } else if (typeof google != 'undefined' && google.colab.kernel != null) {\n var comm_promise = google.colab.kernel.comms.open(comm_id)\n comm_promise.then((comm) => {\n window.PyViz.comms[comm_id] = comm;\n if (msg_handler) {\n var messages = comm.messages[Symbol.asyncIterator]();\n function processIteratorResult(result) {\n var message = result.value;\n var content = {data: message.data};\n var metadata = message.metadata || {comm_id};\n var msg = {content, metadata}\n msg_handler(msg);\n return messages.next().then(processIteratorResult);\n }\n return messages.next().then(processIteratorResult);\n }\n }) \n var sendClosure = (data, metadata, buffers, disposeOnDone) => {\n return comm_promise.then((comm) => {\n comm.send(data, metadata, buffers, disposeOnDone);\n });\n };\n var comm = {\n send: sendClosure\n };\n }\n window.PyViz.comms[comm_id] = comm;\n return comm;\n }\n window.PyViz.comm_manager = new JupyterCommManager();\n \n\n\nvar JS_MIME_TYPE = 'application/javascript';\nvar HTML_MIME_TYPE = 'text/html';\nvar EXEC_MIME_TYPE = 'application/vnd.holoviews_exec.v0+json';\nvar CLASS_NAME = 'output';\n\n/**\n * Render data to the DOM node\n */\nfunction render(props, node) {\n var div = document.createElement(\"div\");\n var script = document.createElement(\"script\");\n node.appendChild(div);\n node.appendChild(script);\n}\n\n/**\n * Handle when a new output is added\n */\nfunction handle_add_output(event, handle) {\n var output_area = handle.output_area;\n var output = handle.output;\n if ((output.data == undefined) || (!output.data.hasOwnProperty(EXEC_MIME_TYPE))) {\n return\n }\n var id = output.metadata[EXEC_MIME_TYPE][\"id\"];\n var toinsert = output_area.element.find(\".\" + CLASS_NAME.split(' ')[0]);\n if (id !== undefined) {\n var nchildren = toinsert.length;\n var html_node = toinsert[nchildren-1].children[0];\n html_node.innerHTML = output.data[HTML_MIME_TYPE];\n var scripts = [];\n var nodelist = html_node.querySelectorAll(\"script\");\n for (var i in nodelist) {\n if (nodelist.hasOwnProperty(i)) {\n scripts.push(nodelist[i])\n }\n }\n\n scripts.forEach( function (oldScript) {\n var newScript = document.createElement(\"script\");\n var attrs = [];\n var nodemap = oldScript.attributes;\n for (var j in nodemap) {\n if (nodemap.hasOwnProperty(j)) {\n attrs.push(nodemap[j])\n }\n }\n attrs.forEach(function(attr) { newScript.setAttribute(attr.name, attr.value) });\n newScript.appendChild(document.createTextNode(oldScript.innerHTML));\n oldScript.parentNode.replaceChild(newScript, oldScript);\n });\n if (JS_MIME_TYPE in output.data) {\n toinsert[nchildren-1].children[1].textContent = output.data[JS_MIME_TYPE];\n }\n output_area._hv_plot_id = id;\n if ((window.Bokeh !== undefined) && (id in Bokeh.index)) {\n window.PyViz.plot_index[id] = Bokeh.index[id];\n } else {\n window.PyViz.plot_index[id] = null;\n }\n } else if (output.metadata[EXEC_MIME_TYPE][\"server_id\"] !== undefined) {\n var bk_div = document.createElement(\"div\");\n bk_div.innerHTML = output.data[HTML_MIME_TYPE];\n var script_attrs = bk_div.children[0].attributes;\n for (var i = 0; i < script_attrs.length; i++) {\n toinsert[toinsert.length - 1].childNodes[1].setAttribute(script_attrs[i].name, script_attrs[i].value);\n }\n // store reference to server id on output_area\n output_area._bokeh_server_id = output.metadata[EXEC_MIME_TYPE][\"server_id\"];\n }\n}\n\n/**\n * Handle when an output is cleared or removed\n */\nfunction handle_clear_output(event, handle) {\n var id = handle.cell.output_area._hv_plot_id;\n var server_id = handle.cell.output_area._bokeh_server_id;\n if (((id === undefined) || !(id in PyViz.plot_index)) && (server_id !== undefined)) { return; }\n var comm = window.PyViz.comm_manager.get_client_comm(\"hv-extension-comm\", \"hv-extension-comm\", function () {});\n if (server_id !== null) {\n comm.send({event_type: 'server_delete', 'id': server_id});\n return;\n } else if (comm !== null) {\n comm.send({event_type: 'delete', 'id': id});\n }\n delete PyViz.plot_index[id];\n if ((window.Bokeh !== undefined) & (id in window.Bokeh.index)) {\n var doc = window.Bokeh.index[id].model.document\n doc.clear();\n const i = window.Bokeh.documents.indexOf(doc);\n if (i > -1) {\n window.Bokeh.documents.splice(i, 1);\n }\n }\n}\n\n/**\n * Handle kernel restart event\n */\nfunction handle_kernel_cleanup(event, handle) {\n delete PyViz.comms[\"hv-extension-comm\"];\n window.PyViz.plot_index = {}\n}\n\n/**\n * Handle update_display_data messages\n */\nfunction handle_update_output(event, handle) {\n handle_clear_output(event, {cell: {output_area: handle.output_area}})\n handle_add_output(event, handle)\n}\n\nfunction register_renderer(events, OutputArea) {\n function append_mime(data, metadata, element) {\n // create a DOM node to render to\n var toinsert = this.create_output_subarea(\n metadata,\n CLASS_NAME,\n EXEC_MIME_TYPE\n );\n this.keyboard_manager.register_events(toinsert);\n // Render to node\n var props = {data: data, metadata: metadata[EXEC_MIME_TYPE]};\n render(props, toinsert[0]);\n element.append(toinsert);\n return toinsert\n }\n\n events.on('output_added.OutputArea', handle_add_output);\n events.on('output_updated.OutputArea', handle_update_output);\n events.on('clear_output.CodeCell', handle_clear_output);\n events.on('delete.Cell', handle_clear_output);\n events.on('kernel_ready.Kernel', handle_kernel_cleanup);\n\n OutputArea.prototype.register_mime_type(EXEC_MIME_TYPE, append_mime, {\n safe: true,\n index: 0\n });\n}\n\nif (window.Jupyter !== undefined) {\n try {\n var events = require('base/js/events');\n var OutputArea = require('notebook/js/outputarea').OutputArea;\n if (OutputArea.prototype.mime_types().indexOf(EXEC_MIME_TYPE) == -1) {\n register_renderer(events, OutputArea);\n }\n } catch(err) {\n }\n}\n", "application/vnd.holoviews_load.v0+json": "" }, "metadata": {}, "output_type": "display_data" }, { "data": { "text/html": [ "" ] }, "metadata": {}, "output_type": "display_data" }, { "data": { "application/vnd.holoviews_exec.v0+json": "", "text/html": [ "
\n", "
\n", "
\n", "" ] }, "metadata": { "application/vnd.holoviews_exec.v0+json": { "id": "p1002" } }, "output_type": "display_data" }, { "data": { "text/html": [ "\n", "
\n", "\n", "\n", "\n", " \n", " \n", "\n", "\n", "\n", "\n", "
\n" ] }, "metadata": {}, "output_type": "display_data" } ], "source": [ "import pandas as pd\n", "import holoviews as hv\n", "\n", "hv.extension('bokeh')" ] }, { "cell_type": "code", "execution_count": 42, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
[07/15/24 10:40:44] DEBUG    Load file                                                                   base.py:36\n",
       "                             `/Users/bao/projects/pangenome/LAPurple/asm_classify/SoChr05C.fa.classifica           \n",
       "                             tions.bed.gz`                                                                         \n",
       "
\n" ], "text/plain": [ "\u001b[2;36m[07/15/24 10:40:44]\u001b[0m\u001b[2;36m \u001b[0m\u001b[32mDEBUG \u001b[0m Load file \u001b]8;id=413145;file:///Users/bao/code/jcvi/jcvi/formats/base.py\u001b\\\u001b[2mbase.py\u001b[0m\u001b]8;;\u001b\\\u001b[2m:\u001b[0m\u001b]8;id=628983;file:///Users/bao/code/jcvi/jcvi/formats/base.py#36\u001b\\\u001b[2m36\u001b[0m\u001b]8;;\u001b\\\n", "\u001b[2;36m \u001b[0m `\u001b[35m/Users/bao/projects/pangenome/LAPurple/asm_classify/\u001b[0m\u001b[95mSoChr05C.fa.classifica\u001b[0m \u001b[2m \u001b[0m\n", "\u001b[2;36m \u001b[0m \u001b[95mtions.bed.gz\u001b[0m` \u001b[2m \u001b[0m\n" ] }, "metadata": {}, "output_type": "display_data" }, { "data": {}, "metadata": {}, "output_type": "display_data" }, { "data": { "application/vnd.holoviews_exec.v0+json": "", "text/html": [ "
\n", "
\n", "
\n", "" ], "text/plain": [ ":Scatter [x] (y)" ] }, "execution_count": 42, "metadata": { "application/vnd.holoviews_exec.v0+json": { "id": "p1980" } }, "output_type": "execute_result" } ], "source": [ "from jcvi.formats.bed import Bed\n", "from collections import Counter\n", "\n", "chrom = \"SoChr05C\"\n", "bedfile = f\"/Users/bao/projects/pangenome/LAPurple/asm_classify/{chrom}.fa.classifications.bed.gz\"\n", "def get_bins(bedfile: str) -> dict:\n", " bed = Bed(bedfile)\n", " bins = defaultdict(Counter)\n", " for b in bed:\n", " start = b.start // 100_000 * 100_000\n", " accn = b.accn.split(\":\", 1)[0]\n", " bins[start][accn] += 1\n", " bin_tags = [(k, v.most_common(1)[0][0]) for (k, v) in bins.items()]\n", " return bin_tags\n", "\n", "bin_tags = get_bins(bedfile)\n", "hv.Scatter(bin_tags).opts(width=800, height=400, padding=0.1, size=1, title=chrom, xlabel=\"\", ylabel=\"\")" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "## Find all chimeric chromosome pairs" ] }, { "cell_type": "code", "execution_count": 46, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
\n", "\n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
IDLengthKmersClassificationChr01A.faChr01B.faChr01C.faChr01D.faChr01E.faChr01F.fa...Chr09G.faChr09H.faChr10A.faChr10B.faChr10C.faChr10D.faChr10E.faChr10F.faChr10G.faChr10H.fa
0SoChr04_Alt4444407554474468Chr04B.fa,Chr04H.fa:65,201621484991479161393...885953148536884577375
0SsChr07C835609164139854Unclassified:11,6361167204337169204981837217359...1219671946622336714486237521952914939153131915917737
0SoChr05_Alt3193130762840088Chr05F.fa,Chr01C.fa:90,2325242642481394108...11116510101027137215
0SsChr03D821360133769406Unclassified:9,8319682729435459201052039118781...15234138001995416621143362283717484146152117716329
0SoChr10A790024347840909Chr10A.fa,Chr10B.fa:48,434671555275482155292...297448637734833447717115988875892901682534628196729
..................................................................
0SoChr04D867329398135797Chr04A.fa,Chr04B.fa:52,261120197321162137057216832...3044294192592003117471126440218
0SoChr10B686142916345932Chr10C.fa,Chr10G.fa:58,2912038741423270205136...994538516751370716833930365054308171864797102505
0SsChr02A1086299005492184Unclassified:15,6440875171035212238312781226845...16063167002818019197227102341224430196443171121546
0SoChr01_Alt59328298944170Chr01B.fa,Chr01H.fa:88,48588355437872145120714362...418261016273140
0SoChr05B849590308496201Chr05E.fa,Chr05A.fa:68,181060210747029125361804835...109624721269712337427691501345671898
\n", "

124 rows × 84 columns

\n", "
" ], "text/plain": [ " ID Length Kmers Classification Chr01A.fa \\\n", "0 SoChr04_Alt4 44440755 4474468 Chr04B.fa,Chr04H.fa:65,20 162 \n", "0 SsChr07C 83560916 4139854 Unclassified:11,6 36116 \n", "0 SoChr05_Alt3 19313076 2840088 Chr05F.fa,Chr01C.fa:90,2 3 \n", "0 SsChr03D 82136013 3769406 Unclassified:9,8 31968 \n", "0 SoChr10A 79002434 7840909 Chr10A.fa,Chr10B.fa:48,43 467 \n", ".. ... ... ... ... ... \n", "0 SoChr04D 86732939 8135797 Chr04A.fa,Chr04B.fa:52,26 1120 \n", "0 SoChr10B 68614291 6345932 Chr10C.fa,Chr10G.fa:58,29 120 \n", "0 SsChr02A 108629900 5492184 Unclassified:15,6 44087 \n", "0 SoChr01_Alt5 9328298 944170 Chr01B.fa,Chr01H.fa:88,4 858 \n", "0 SoChr05B 84959030 8496201 Chr05E.fa,Chr05A.fa:68,18 1060 \n", "\n", " Chr01B.fa Chr01C.fa Chr01D.fa Chr01E.fa Chr01F.fa ... Chr09G.fa \\\n", "0 148 499 1479 161 393 ... 88 \n", "0 72043 37169 20498 18372 17359 ... 121967 \n", "0 25242 64248 13 94 108 ... 11 \n", "0 27294 35459 20105 20391 18781 ... 15234 \n", "0 1555 275 482 155 292 ... 297 \n", ".. ... ... ... ... ... ... ... \n", "0 19732 1162 1370 572 16832 ... 304 \n", "0 3874 1423 270 205 136 ... 99 \n", "0 51710 35212 23831 27812 26845 ... 16063 \n", "0 835543 787 21451 207 14362 ... 4 \n", "0 2107 47029 1253 6180 4835 ... 1096 \n", "\n", " Chr09H.fa Chr10A.fa Chr10B.fa Chr10C.fa Chr10D.fa Chr10E.fa \\\n", "0 59 53 148 53 68 84 \n", "0 194662 23367 14486 23752 19529 14939 \n", "0 11 6 5 10 10 10271 \n", "0 13800 19954 16621 14336 22837 17484 \n", "0 4486 3773483 3447717 11598 88758 92901 \n", ".. ... ... ... ... ... ... \n", "0 429 419 259 200 3117 471 \n", "0 45 3851 6751 3707168 339303 65054 \n", "0 16700 28180 19197 22710 23412 24430 \n", "0 1 8 26 1 0 16 \n", "0 2472 1269 712 337 427 691 \n", "\n", " Chr10F.fa Chr10G.fa Chr10H.fa \n", "0 57 73 75 \n", "0 15313 19159 17737 \n", "0 37 2 15 \n", "0 14615 21177 16329 \n", "0 68253 46281 96729 \n", ".. ... ... ... \n", "0 126 440 218 \n", "0 30817 1864797 102505 \n", "0 19644 31711 21546 \n", "0 27 31 40 \n", "0 5013 456 71898 \n", "\n", "[124 rows x 84 columns]" ] }, "execution_count": 46, "metadata": {}, "output_type": "execute_result" } ], "source": [ "from glob import glob\n", "\n", "tsvfiles = glob(\n", " \"/Users/bao/projects/pangenome/LAPurple/asm_classify/*.read_classifications.tsv\"\n", ")\n", "data = []\n", "for tsvfile in tsvfiles:\n", " data.append(pd.read_csv(tsvfile, sep=\"\\t\"))\n", "df = pd.concat(data)\n", "df" ] }, { "cell_type": "code", "execution_count": 2, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
\n", "\n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
IDLengthKmersClassificationSoChr01A.faSoChr01B.faSoChr01C.faSoChr01D.faSoChr01E.faSoChr01F.fa...SsChr08A.faSsChr08B.faSsChr08C.faSsChr08D.faSsChr08E.faSsChr08F.faSsChr08G.faSsChr08H.faSsChr08I.faSsChr08J.fa
0SoChr01A1141560615174640SoChr01G.fa,SoChr01H.fa:51,391854213981301471906538611256928...40332628276622163433
1SoChr01B986824206533561SoChr01B.fa,SoChr01F.fa:78,131377051414851957170123122928867975...2824301394474859029
2SoChr01C1166330007966860SoChr01A.fa,SoChr01D.fa:58,3546287576105736572284888015999024324...28759365762223229107
3SoChr01D1004884076769347SoChr01C.fa,SoChr01E.fa:73,144758348092498003750821960126406807...9178691163127655645381
4SoChr01_Alt1133376321130850SoChr01H.fa,SoChr01D.fa:94,3776835620843418317212492...9215167351481
..................................................................
119SsChr08A659893497067773SsChr08A.fa,SsChr01D.fa:98,143223341116...695404511551373412712446627055255643734
120SsChr08B682647076136026SsChr08F.fa,SsChr08H.fa:63,301221835161274977...667026790777512414495339083301283618776991791352
121SsChr08C646741563399027SsChr08I.fa,SsChr08A.fa:95,114959731187458...405703338215407525252128271269541443255558210
122SsChr08D671582165177749SsChr08B.fa,SsChr08A.fa:96,01124150445742...371804984519814726125344391430361100058074419
123SsChr08E597141073017317SsChr08G.fa,SsChr08D.fa:91,114185106166161100...373797800411855334031425947027588472130721704
\n", "

124 rows × 164 columns

\n", "
" ], "text/plain": [ " ID Length Kmers Classification \\\n", "0 SoChr01A 114156061 5174640 SoChr01G.fa,SoChr01H.fa:51,39 \n", "1 SoChr01B 98682420 6533561 SoChr01B.fa,SoChr01F.fa:78,13 \n", "2 SoChr01C 116633000 7966860 SoChr01A.fa,SoChr01D.fa:58,35 \n", "3 SoChr01D 100488407 6769347 SoChr01C.fa,SoChr01E.fa:73,14 \n", "4 SoChr01_Alt1 13337632 1130850 SoChr01H.fa,SoChr01D.fa:94,3 \n", ".. ... ... ... ... \n", "119 SsChr08A 65989349 7067773 SsChr08A.fa,SsChr01D.fa:98,1 \n", "120 SsChr08B 68264707 6136026 SsChr08F.fa,SsChr08H.fa:63,30 \n", "121 SsChr08C 64674156 3399027 SsChr08I.fa,SsChr08A.fa:95,1 \n", "122 SsChr08D 67158216 5177749 SsChr08B.fa,SsChr08A.fa:96,0 \n", "123 SsChr08E 59714107 3017317 SsChr08G.fa,SsChr08D.fa:91,1 \n", "\n", " SoChr01A.fa SoChr01B.fa SoChr01C.fa SoChr01D.fa SoChr01E.fa \\\n", "0 18542 13981 30147 190653 86112 \n", "1 13770 5141485 19571 70123 122928 \n", "2 4628757 61057 36572 2848880 159990 \n", "3 47583 48092 4980037 50821 960126 \n", "4 7768 356 2084 34183 1721 \n", ".. ... ... ... ... ... \n", "119 43 22 33 4 11 \n", "120 122 183 516 127 49 \n", "121 149 59 73 118 74 \n", "122 112 41 50 44 57 \n", "123 141 85 106 166 161 \n", "\n", " SoChr01F.fa ... SsChr08A.fa SsChr08B.fa SsChr08C.fa SsChr08D.fa \\\n", "0 56928 ... 40 33 26 28 \n", "1 867975 ... 28 24 30 13 \n", "2 24324 ... 28 75 9 36 \n", "3 406807 ... 91 78 69 116 \n", "4 2492 ... 9 2 15 16 \n", ".. ... ... ... ... ... ... \n", "119 16 ... 6954045 1155 1373 4127 \n", "120 77 ... 6670 267907 775 12414 \n", "121 58 ... 40570 3338 215 4075 \n", "122 42 ... 37180 4984519 814 7261 \n", "123 100 ... 37379 7800 41185 53340 \n", "\n", " SsChr08E.fa SsChr08F.fa SsChr08G.fa SsChr08H.fa SsChr08I.fa \\\n", "0 27 66 22 16 34 \n", "1 94 47 48 59 0 \n", "2 57 62 22 32 29 \n", "3 312 76 55 64 53 \n", "4 7 3 5 14 8 \n", ".. ... ... ... ... ... \n", "119 12446 6270 55 2556 43 \n", "120 4953 3908330 12836 1877699 1791 \n", "121 25252 12827 12695 4144 3255558 \n", "122 25344 3914 30361 10005 8074 \n", "123 31425 9470 2758847 2130 721 \n", "\n", " SsChr08J.fa \n", "0 33 \n", "1 29 \n", "2 107 \n", "3 81 \n", "4 1 \n", ".. ... \n", "119 734 \n", "120 352 \n", "121 210 \n", "122 419 \n", "123 704 \n", "\n", "[124 rows x 164 columns]" ] }, "execution_count": 2, "metadata": {}, "output_type": "execute_result" } ], "source": [ "df = pd.read_csv(\"/Users/bao/projects/pangenome/LAPurple/SoSs.ref_classify.tsv\", sep=\"\\t\")\n", "df" ] }, { "cell_type": "code", "execution_count": 5, "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "SoChr02A.fa,SoChr05E.fa:90,2\n", "SoChr02B.fa,SoChr02A.fa:91,1\n", "SsChr01G.fa,SsChr01F.fa:95,2\n", "SsChr01H.fa,SsChr01D.fa:95,1\n", "SsChr03A.fa,SsChr03G.fa:99,0\n", "SsChr03E.fa,SsChr03F.fa:91,1\n", "SsChr03H.fa,SsChr03F.fa:88,2\n", "SsChr04F.fa,SsChr04G.fa:97,0\n", "SsChr06C.fa,SsChr06G.fa:99,0\n", "SsChr06E.fa,SsChr06H.fa:92,1\n", "SsChr06A.fa,SsChr06H.fa:97,0\n", "SsChr07G.fa,SsChr07E.fa:99,0\n", "SsChr07B.fa,SsChr07C.fa:97,0\n", "SsChr07J.fa,SsChr07H.fa:93,3\n", "SsChr07F.fa,SsChr07A.fa:97,0\n", "SsChr08A.fa,SsChr01D.fa:98,1\n", "SsChr08I.fa,SsChr08A.fa:95,1\n", "SsChr08B.fa,SsChr08A.fa:96,0\n", "SsChr08G.fa,SsChr08D.fa:91,1\n", "59 {('SoChr06E', 'SoChr06G'), ('SoChr09D', 'SoChr09F'), ('SsChr05A', 'SsChr05G'), ('SsChr06B', 'SsChr06J'), ('SsChr02B', 'SsChr02H'), ('SsChr05H', 'SsChr05I'), ('SoChr08F', 'SoChr08G'), ('SsChr02G', 'SsChr02J'), ('SoChr01A', 'SoChr01D'), ('SoChr03B', 'SoChr03G'), ('SoChr10D', 'SoChr10H'), ('SsChr02A', 'SsChr02F'), ('SoChr08B', 'SoChr08H'), ('SsChr02D', 'SsChr02I'), ('SoChr05G', 'SoChr05H'), ('SoChr07B', 'SoChr07F'), ('SoChr06C', 'SoChr06H'), ('SoChr09C', 'SoChr09H'), ('SoChr09A', 'SoChr09B'), ('SoChr01C', 'SoChr01E'), ('SsChr07C', 'SsChr07D'), ('SoChr07A', 'SoChr07H'), ('SoChr09E', 'SoChr09G'), ('SoChr04C', 'SoChr04F'), ('SoChr07C', 'SoChr07E'), ('SoChr03A', 'SoChr03E'), ('SoChr10C', 'SoChr10G'), ('SoChr05B', 'SoChr05F'), ('SoChr06D', 'SoChr06F'), ('SoChr06A', 'SoChr06H'), ('SoChr04D', 'SoChr04H'), ('SoChr01G', 'SoChr01H'), ('SoChr03C', 'SoChr03H'), ('SoChr08A', 'SoChr08D'), ('SoChr10E', 'SoChr10F'), ('SsChr05B', 'SsChr05J'), ('SoChr10A', 'SoChr10B'), ('SsChr04D', 'SsChr04G'), ('SsChr05C', 'SsChr05E'), ('SoChr07D', 'SoChr07G'), ('SsChr03D', 'SsChr03I'), ('SsChr08F', 'SsChr08H'), ('SoChr02G', 'SoChr02H'), ('SoChr01B', 'SoChr01F'), ('SsChr03B', 'SsChr03C'), ('SoChr05A', 'SoChr05E'), ('SsChr05D', 'SsChr05F'), ('SsChr04C', 'SsChr04H'), ('SoChr02E', 'SoChr02F'), ('SoChr03D', 'SoChr03F'), ('SsChr01B', 'SsChr01D'), ('SoChr08C', 'SoChr08E'), ('SoChr05C', 'SoChr05D'), ('SsChr06D', 'SsChr06F'), ('SsChr02C', 'SsChr02E'), ('SsChr04E', 'SsChr04I'), ('SoChr04A', 'SoChr04B'), ('SoChr04E', 'SoChr04G'), ('SsChr04A', 'SsChr04B')}\n" ] } ], "source": [ "data = []\n", "pairs = set()\n", "fw = open(\"chimeric_chrom_pairs.tsv\", \"w\")\n", "for _, row in df.iterrows():\n", " seqid = row[\"ID\"]\n", " if \"Alt\" in seqid:\n", " continue\n", " classification = row[\"Classification\"]\n", " if \"Unclassified\" in classification:\n", " continue\n", " ab, scores = classification.split(\":\", 1)\n", " a, b = ab.replace(\".fa\", \"\").split(\",\")\n", " if a[:7] != b[:7]:\n", " print(classification)\n", " continue\n", " ascore, bscore = scores.split(\",\")\n", " if int(bscore) < 5:\n", " print(classification)\n", " continue\n", " data.append((seqid, classification, a, b))\n", " pairs.add(tuple(sorted((a, b))))\n", "data.sort()\n", "print(\"ID\\tClassification\\tChromA\\tChromB\", file=fw)\n", "for d in data:\n", " print(\"\\t\".join(d), file=fw)\n", "fw.close()\n", "print(len(pairs), pairs)" ] }, { "cell_type": "code", "execution_count": 43, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
\n", "\n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
IDLengthKmersClassificationChr01A.faChr01B.faChr01C.faChr01D.faChr01E.faChr01F.fa...Chr09G.faChr09H.faChr10A.faChr10B.faChr10C.faChr10D.faChr10E.faChr10F.faChr10G.faChr10H.fa
0edca1324-667e-4118-8507-4856b6d22b05884Chr02B.fa,Chr02F.fa:75,25000000...0000000000
1902e0f53-3693-4a6f-ba95-06756383b32f101528Chr04H.fa,Chr01A.fa:100,0000000...0000000000
2a7007a10-28c9-43db-bd50-81d323e7041510972Chr04B.fa,Chr01A.fa:100,0000000...0000000000
30f633f29-01ef-492d-8f33-ea12ccb4f7bc80837Chr02A.fa,Chr09G.fa:78,18000000...7000000000
44758da69-16e4-4162-a365-0b36796a935e111635Chr09G.fa,Chr05C.fa:68,28000000...24000001000
..................................................................
15604757ff5a8b5-66ed-49c6-9ae8-db6746d2e6982426262Chr09F.fa,Chr10G.fa:91,3000700...0000000190
1560476f1acf7d9-c8d8-4e7c-be1c-5b34c42809249247168Unclassified:12,8020100...0080002010
15604775c692a35-c7e7-4a77-b142-d0bf8ba77be83376107Chr08D.fa,Chr05F.fa:84,4100000...0020000000
15604783cf800c1-91e5-4f2d-aa56-30f8094d996e17070Unclassified:0,0000000...0000000000
1560479cb34dcc6-7d79-4b92-b7dd-95b834d2f6ed2373133Chr07E.fa,Chr07G.fa:74,25000000...0000000000
\n", "

1560480 rows × 84 columns

\n", "
" ], "text/plain": [ " ID Length Kmers \\\n", "0 edca1324-667e-4118-8507-4856b6d22b05 88 4 \n", "1 902e0f53-3693-4a6f-ba95-06756383b32f 1015 28 \n", "2 a7007a10-28c9-43db-bd50-81d323e70415 1097 2 \n", "3 0f633f29-01ef-492d-8f33-ea12ccb4f7bc 808 37 \n", "4 4758da69-16e4-4162-a365-0b36796a935e 1116 35 \n", "... ... ... ... \n", "1560475 7ff5a8b5-66ed-49c6-9ae8-db6746d2e698 2426 262 \n", "1560476 f1acf7d9-c8d8-4e7c-be1c-5b34c4280924 9247 168 \n", "1560477 5c692a35-c7e7-4a77-b142-d0bf8ba77be8 3376 107 \n", "1560478 3cf800c1-91e5-4f2d-aa56-30f8094d996e 1707 0 \n", "1560479 cb34dcc6-7d79-4b92-b7dd-95b834d2f6ed 2373 133 \n", "\n", " Classification Chr01A.fa Chr01B.fa Chr01C.fa \\\n", "0 Chr02B.fa,Chr02F.fa:75,25 0 0 0 \n", "1 Chr04H.fa,Chr01A.fa:100,0 0 0 0 \n", "2 Chr04B.fa,Chr01A.fa:100,0 0 0 0 \n", "3 Chr02A.fa,Chr09G.fa:78,18 0 0 0 \n", "4 Chr09G.fa,Chr05C.fa:68,28 0 0 0 \n", "... ... ... ... ... \n", "1560475 Chr09F.fa,Chr10G.fa:91,3 0 0 0 \n", "1560476 Unclassified:12,8 0 2 0 \n", "1560477 Chr08D.fa,Chr05F.fa:84,4 1 0 0 \n", "1560478 Unclassified:0,0 0 0 0 \n", "1560479 Chr07E.fa,Chr07G.fa:74,25 0 0 0 \n", "\n", " Chr01D.fa Chr01E.fa Chr01F.fa ... Chr09G.fa Chr09H.fa \\\n", "0 0 0 0 ... 0 0 \n", "1 0 0 0 ... 0 0 \n", "2 0 0 0 ... 0 0 \n", "3 0 0 0 ... 7 0 \n", "4 0 0 0 ... 24 0 \n", "... ... ... ... ... ... ... \n", "1560475 7 0 0 ... 0 0 \n", "1560476 1 0 0 ... 0 0 \n", "1560477 0 0 0 ... 0 0 \n", "1560478 0 0 0 ... 0 0 \n", "1560479 0 0 0 ... 0 0 \n", "\n", " Chr10A.fa Chr10B.fa Chr10C.fa Chr10D.fa Chr10E.fa Chr10F.fa \\\n", "0 0 0 0 0 0 0 \n", "1 0 0 0 0 0 0 \n", "2 0 0 0 0 0 0 \n", "3 0 0 0 0 0 0 \n", "4 0 0 0 0 1 0 \n", "... ... ... ... ... ... ... \n", "1560475 0 0 0 0 0 1 \n", "1560476 8 0 0 0 2 0 \n", "1560477 2 0 0 0 0 0 \n", "1560478 0 0 0 0 0 0 \n", "1560479 0 0 0 0 0 0 \n", "\n", " Chr10G.fa Chr10H.fa \n", "0 0 0 \n", "1 0 0 \n", "2 0 0 \n", "3 0 0 \n", "4 0 0 \n", "... ... ... \n", "1560475 9 0 \n", "1560476 1 0 \n", "1560477 0 0 \n", "1560478 0 0 \n", "1560479 0 0 \n", "\n", "[1560480 rows x 84 columns]" ] }, "execution_count": 43, "metadata": {}, "output_type": "execute_result" } ], "source": [ "rc = \"/Users/bao/projects/pangenome/LAPurple/read_classify/pass.all.part_001.fq.gz.read_classifications.tsv.gz\"\n", "rf = pd.read_csv(rc, sep=\"\\t\")\n", "rf" ] }, { "cell_type": "code", "execution_count": 85, "metadata": {}, "outputs": [], "source": [ "filtered = []\n", "for _, row in rf.iterrows():\n", " read_id = row[\"ID\"]\n", " length = row[\"Length\"]\n", " kmers = row[\"Kmers\"]\n", " classification = row[\"Classification\"]\n", " if \"Unclassified\" in classification:\n", " continue\n", " ab, scores = classification.split(\":\", 1)\n", " a, b = ab.replace(\".fa\", \"\").split(\",\")\n", " a, b = tuple(sorted((a, b)))\n", " ascore, bscore = scores.split(\",\", 1)\n", " ascore, bscore = int(ascore), int(bscore)\n", " if kmers >= 100 and length > 1000 and ascore + bscore >= 80 and bscore >= 10 and (a, b) in pairs:\n", " row[\"Label\"] = f\"{a}_{b}\"\n", " filtered.append(row)" ] }, { "cell_type": "code", "execution_count": 86, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
\n", "\n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
IDLengthKmersClassificationChr01A.faChr01B.faChr01C.faChr01D.faChr01E.faChr01F.fa...Chr09H.faChr10A.faChr10B.faChr10C.faChr10D.faChr10E.faChr10F.faChr10G.faChr10H.faLabel
8782f307dc3-9b72-4bb1-9aa1-16b870948c1d3846249Chr03F.fa,Chr03D.fa:72,16000000...000000000Chr03D_Chr03F
2445fdcd00a1-ae98-42f4-a5a6-5e07cf13c5521172145Chr05F.fa,Chr05B.fa:57,36000000...000000000Chr05B_Chr05F
267592ccfe6b-0cde-439d-b069-7b6b9580ffb13096117Chr10F.fa,Chr10E.fa:76,13000000...10000169000Chr10E_Chr10F
4226444d1dff-2091-4bc3-a218-41e2ce32ce311342108Chr08G.fa,Chr08F.fa:77,21000000...000000000Chr08F_Chr08G
459589199b8c-60e9-43c8-9955-cbcb5d5646ab3098133Chr01A.fa,Chr01D.fa:64,2086002700...000000000Chr01A_Chr01D
..................................................................
15587652e0ec991-df9a-4a30-8c83-86f6c358009a330512697Chr06H.fa,Chr06A.fa:50,47012000...001030000Chr06A_Chr06H
155883784755fad-4ed7-41b6-8261-b918a70d9305143143187Chr06A.fa,Chr06H.fa:73,22000000...000000000Chr06A_Chr06H
1559406fdba59c8-43db-4c5e-bfbd-25186e8da8e791281067Chr10F.fa,Chr10E.fa:81,12000000...00002413587310Chr10E_Chr10F
156027578cd832a-6e56-4c96-a5b0-6a92e5dc5c2f8519670Chr04A.fa,Chr04B.fa:66,16000010...000000000Chr04A_Chr04B
1560278b3a07e53-d87e-478a-846a-3645ede0a39b3467113Chr06H.fa,Chr06C.fa:80,18000000...000000000Chr06C_Chr06H
\n", "

3861 rows × 85 columns

\n", "
" ], "text/plain": [ " ID Length Kmers \\\n", "878 2f307dc3-9b72-4bb1-9aa1-16b870948c1d 3846 249 \n", "2445 fdcd00a1-ae98-42f4-a5a6-5e07cf13c552 1172 145 \n", "2675 92ccfe6b-0cde-439d-b069-7b6b9580ffb1 3096 117 \n", "4226 444d1dff-2091-4bc3-a218-41e2ce32ce31 1342 108 \n", "4595 89199b8c-60e9-43c8-9955-cbcb5d5646ab 3098 133 \n", "... ... ... ... \n", "1558765 2e0ec991-df9a-4a30-8c83-86f6c358009a 33051 2697 \n", "1558837 84755fad-4ed7-41b6-8261-b918a70d9305 14314 3187 \n", "1559406 fdba59c8-43db-4c5e-bfbd-25186e8da8e7 9128 1067 \n", "1560275 78cd832a-6e56-4c96-a5b0-6a92e5dc5c2f 8519 670 \n", "1560278 b3a07e53-d87e-478a-846a-3645ede0a39b 3467 113 \n", "\n", " Classification Chr01A.fa Chr01B.fa Chr01C.fa \\\n", "878 Chr03F.fa,Chr03D.fa:72,16 0 0 0 \n", "2445 Chr05F.fa,Chr05B.fa:57,36 0 0 0 \n", "2675 Chr10F.fa,Chr10E.fa:76,13 0 0 0 \n", "4226 Chr08G.fa,Chr08F.fa:77,21 0 0 0 \n", "4595 Chr01A.fa,Chr01D.fa:64,20 86 0 0 \n", "... ... ... ... ... \n", "1558765 Chr06H.fa,Chr06A.fa:50,47 0 1 2 \n", "1558837 Chr06A.fa,Chr06H.fa:73,22 0 0 0 \n", "1559406 Chr10F.fa,Chr10E.fa:81,12 0 0 0 \n", "1560275 Chr04A.fa,Chr04B.fa:66,16 0 0 0 \n", "1560278 Chr06H.fa,Chr06C.fa:80,18 0 0 0 \n", "\n", " Chr01D.fa Chr01E.fa Chr01F.fa ... Chr09H.fa Chr10A.fa \\\n", "878 0 0 0 ... 0 0 \n", "2445 0 0 0 ... 0 0 \n", "2675 0 0 0 ... 1 0 \n", "4226 0 0 0 ... 0 0 \n", "4595 27 0 0 ... 0 0 \n", "... ... ... ... ... ... ... \n", "1558765 0 0 0 ... 0 0 \n", "1558837 0 0 0 ... 0 0 \n", "1559406 0 0 0 ... 0 0 \n", "1560275 0 1 0 ... 0 0 \n", "1560278 0 0 0 ... 0 0 \n", "\n", " Chr10B.fa Chr10C.fa Chr10D.fa Chr10E.fa Chr10F.fa Chr10G.fa \\\n", "878 0 0 0 0 0 0 \n", "2445 0 0 0 0 0 0 \n", "2675 0 0 0 16 90 0 \n", "4226 0 0 0 0 0 0 \n", "4595 0 0 0 0 0 0 \n", "... ... ... ... ... ... ... \n", "1558765 1 0 3 0 0 0 \n", "1558837 0 0 0 0 0 0 \n", "1559406 0 0 24 135 873 1 \n", "1560275 0 0 0 0 0 0 \n", "1560278 0 0 0 0 0 0 \n", "\n", " Chr10H.fa Label \n", "878 0 Chr03D_Chr03F \n", "2445 0 Chr05B_Chr05F \n", "2675 0 Chr10E_Chr10F \n", "4226 0 Chr08F_Chr08G \n", "4595 0 Chr01A_Chr01D \n", "... ... ... \n", "1558765 0 Chr06A_Chr06H \n", "1558837 0 Chr06A_Chr06H \n", "1559406 0 Chr10E_Chr10F \n", "1560275 0 Chr04A_Chr04B \n", "1560278 0 Chr06C_Chr06H \n", "\n", "[3861 rows x 85 columns]" ] }, "execution_count": 86, "metadata": {}, "output_type": "execute_result" } ], "source": [ "ff = pd.DataFrame(filtered)\n", "ff" ] }, { "cell_type": "code", "execution_count": 22, "metadata": {}, "outputs": [ { "data": {}, "metadata": {}, "output_type": "display_data" }, { "data": { "application/vnd.holoviews_exec.v0+json": "", "text/html": [ "
\n", "
\n", "
\n", "" ], "text/plain": [ ":Curve [start] (depth)" ] }, "execution_count": 22, "metadata": { "application/vnd.holoviews_exec.v0+json": { "id": "p1788" } }, "output_type": "execute_result" } ], "source": [ "hifi_bed = (\n", " \"/Users/bao/projects/pangenome/LAPurple/SoSs/SoSs_HIFI_LAP.mosdepth.regions.bed.gz\"\n", ")\n", "ont_bed = (\n", " \"/Users/bao/projects/pangenome/LAPurple/SoSs/SoSs_LAP_HIFI_LAP.mosdepth.regions.bed.gz\"\n", ")\n", "\n", "def load_bed(bed: str) -> pd.DataFrame:\n", " df = pd.read_csv(bed, sep=\"\\t\")\n", " df.columns = [\"chrom\", \"start\", \"end\", \"depth\"]\n", " return df\n", "\n", "\n", "hf = load_bed(hifi_bed)\n", "of = load_bed(ont_bed)\n", "\n", "def plot_chrom(hf: pd.DataFrame, of: pd.DataFrame, chrom: str) -> hv.Curve:\n", " a = hv.Curve(\n", " hf[hf[\"chrom\"] == chrom], kdims=[\"start\"], vdims=[\"depth\"], label=\"HIFI\"\n", " ).opts(width=800, height=400, xlabel=chrom, alpha=0.5)\n", " b = hv.Curve(\n", " of[of[\"chrom\"] == chrom], kdims=[\"start\"], vdims=[\"depth\"], label=\"LAP-HIFI\"\n", " ).opts(width=800, height=400, xlabel=chrom, alpha=0.5)\n", " df = hf.copy()\n", " df[\"depth\"] = hf[\"depth\"] / (of[of[\"chrom\"] == chrom][\"depth\"] + 1)\n", " c = hv.Curve(\n", " df[df[\"chrom\"] == chrom], kdims=[\"start\"], vdims=[\"depth\"], label=\"HIFI / LAP-HIFI\"\n", " ).opts(width=800, height=400, xlabel=chrom, alpha=0.5)\n", " return c\n", "\n", "\n", "plot_chrom(hf, of, \"SoChr03D\")" ] }, { "cell_type": "code", "execution_count": 23, "metadata": {}, "outputs": [], "source": [ "from collections import defaultdict\n", "# Find the regions that have high depth per chrom\n", "regions = defaultdict(list)\n", "df = hf.copy()\n", "df[\"depth\"] = hf[\"depth\"] / (of[\"depth\"] + 1)\n", "for _, row in df.iterrows():\n", " chrom = row[\"chrom\"]\n", " start = row[\"start\"]\n", " end = row[\"end\"]\n", " depth = row[\"depth\"]\n", " regions[chrom].append((start, end, depth))\n", "\n", "d = []\n", "for chrom, data in regions.items():\n", " if \"utg\" in chrom:\n", " continue\n", " regions[chrom] = sorted(data, key=lambda x: x[2], reverse=True)\n", " d.append((chrom, \",\".join(f\"{chrom}:{a}-{b}:{c}\" for (a, b, c) in regions[chrom] if c > 5)))\n", "\n", "kf = pd.DataFrame(d)\n", "kf.columns = [\"Chrom\", \"Regions\"]\n", "kf.to_csv(\"poi.tsv\", sep=\"\\t\", index=False)" ] }, { "cell_type": "code", "execution_count": 26, "metadata": {}, "outputs": [], "source": [ "pf = pd.read_csv(\"poi.tsv\", sep=\"\\t\")\n", "fw = open(\"poi.bed\", \"w\")\n", "for _, row in pf.dropna().iterrows():\n", " chrom = row[\"Chrom\"]\n", " if not chrom.startswith(\"SoChr\"):\n", " continue\n", " regions = row[\"Regions\"].split(\",\")\n", " for region in regions:\n", " chrom, pos, depth = region.split(\":\")\n", " start, end = pos.split(\"-\")\n", " print(f\"{chrom}\\t{start}\\t{end}\\t{depth}\", file=fw)\n", "fw.close()" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "## Find precise breakpoint\n" ] }, { "cell_type": "code", "execution_count": 1, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
[08/17/24 11:41:58] DEBUG    Load file                                                                   base.py:36\n",
       "                             `/Users/bao/projects/female-restitution/SoSs-filter/roi/9208.roi.csv.extrac           \n",
       "                             ted.fasta.gz.classifications.bed.gz`                                                  \n",
       "
\n" ], "text/plain": [ "\u001b[2;36m[08/17/24 11:41:58]\u001b[0m\u001b[2;36m \u001b[0m\u001b[32mDEBUG \u001b[0m Load file \u001b]8;id=244501;file:///Users/bao/code/jcvi/jcvi/formats/base.py\u001b\\\u001b[2mbase.py\u001b[0m\u001b]8;;\u001b\\\u001b[2m:\u001b[0m\u001b]8;id=742779;file:///Users/bao/code/jcvi/jcvi/formats/base.py#36\u001b\\\u001b[2m36\u001b[0m\u001b]8;;\u001b\\\n", "\u001b[2;36m \u001b[0m `\u001b[35m/Users/bao/projects/female-restitution/SoSs-filter/roi/\u001b[0m\u001b[95m9208.roi.csv.extrac\u001b[0m \u001b[2m \u001b[0m\n", "\u001b[2;36m \u001b[0m \u001b[95mted.fasta.gz.classifications.bed.gz\u001b[0m` \u001b[2m \u001b[0m\n" ] }, "metadata": {}, "output_type": "display_data" } ], "source": [ "from jcvi.formats.bed import Bed\n", "\n", "bed = Bed(\n", " \"/Users/bao/projects/female-restitution/SoSs-filter/roi/9208.roi.csv.extracted.fasta.gz.classifications.bed.gz\"\n", ")" ] }, { "cell_type": "code", "execution_count": null, "metadata": {}, "outputs": [], "source": [ "sub_beds = list(bed.sub_beds())\n", "sub_beds" ] }, { "cell_type": "code", "execution_count": 4, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "'SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs'" ] }, "execution_count": 4, "metadata": {}, "output_type": "execute_result" } ], "source": [ "read, sb = sub_beds[0]\n", "read" ] }, { "cell_type": "code", "execution_count": 10, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "('SoChr01A', 'SoChr01D')" ] }, "execution_count": 10, "metadata": {}, "output_type": "execute_result" } ], "source": [ "ra, rb = read.split(\"_\", 2)[:2]\n", "ra, rb" ] }, { "cell_type": "code", "execution_count": 11, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "['SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01E',\n", " 'SoChr01E',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01A',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr10F',\n", " 'SoChr10F',\n", " 'SoChr10F',\n", " 'SoChr10F',\n", " 'SoChr10F',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr07G',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr06F',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SsChr06E',\n", " 'SsChr06E',\n", " 'SsChr06E',\n", " 'SsChr06E',\n", " 'SsChr06E',\n", " 'SsChr06E',\n", " 'SsChr06E',\n", " 'SsChr06E',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D',\n", " 'SoChr01D']" ] }, "execution_count": 11, "metadata": {}, "output_type": "execute_result" } ], "source": [ "sids = [b.accn.split(\":\", 1)[0] for b in sb]\n", "sids" ] }, { "cell_type": "code", "execution_count": 12, "metadata": {}, "outputs": [], "source": [ "import numpy as np\n", "\n", "n = len(sids)\n", "prefix_a = np.zeros(n, dtype=\"int\")\n", "prefix_b = np.zeros(n, dtype=\"int\")\n", "for i in range(n):\n", " if i == 0:\n", " prefix_a[i] = sids[i] == ra\n", " prefix_b[i] = sids[i] == rb\n", " else:\n", " prefix_a[i] = prefix_a[i - 1] + (sids[i] == ra)\n", " prefix_b[i] = prefix_b[i - 1] + (sids[i] == rb)\n", "suffix_a = [0] * n\n", "suffix_b = [0] * n\n", "for i in range(n - 1, 0, -1):\n", " suffix_a[i - 1] = suffix_a[i] + (sids[i] == ra)\n", " suffix_b[i - 1] = suffix_b[i] + (sids[i] == rb)\n", "ab = prefix_a + suffix_b\n", "ba = prefix_b + suffix_a" ] }, { "cell_type": "code", "execution_count": 13, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "[]" ] }, "execution_count": 13, "metadata": {}, "output_type": "execute_result" }, { "data": { "image/png": "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", "text/plain": [ "
" ] }, "metadata": { "needs_background": "light" }, "output_type": "display_data" } ], "source": [ "%matplotlib inline\n", "\n", "import matplotlib.pyplot as plt\n", "\n", "plt.plot(ab, label=f\"{ra} -> {rb}\")\n", "plt.plot(ba, label=f\"{rb} -> {ra}\")" ] }, { "cell_type": "code", "execution_count": 14, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "(122, 939)" ] }, "execution_count": 14, "metadata": {}, "output_type": "execute_result" } ], "source": [ "np.argmax(ab), np.argmax(ba)" ] }, { "cell_type": "code", "execution_count": 15, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "array([921, 922, 923, 922, 921, 920, 919, 918, 917, 916])" ] }, "execution_count": 15, "metadata": {}, "output_type": "execute_result" } ], "source": [ "ab[120:130]" ] }, { "cell_type": "code", "execution_count": 17, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "[SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1457\t1481\tSoChr01A:88534481938086,\n", " SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1458\t1482\tSoChr01A:72662951041690,\n", " SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1459\t1483\tSoChr01A:9176827456106,\n", " SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1741\t1765\tSoChr01D:147168828183960,\n", " SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1742\t1766\tSoChr01D:25725359314530,\n", " SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1743\t1767\tSoChr01D:102901437258121,\n", " SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1744\t1768\tSoChr01D:130130772321829,\n", " SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1745\t1769\tSoChr01D:116383556933272,\n", " SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1746\t1770\tSoChr01D:111767520174681,\n", " SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1747\t1771\tSoChr01D:112827088574825]" ] }, "execution_count": 17, "metadata": {}, "output_type": "execute_result" } ], "source": [ "sb[120:130]" ] }, { "cell_type": "code", "execution_count": 21, "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1459\t1483\tSoChr01A:9176827456106\n", "SoChr01A_SoChr01D_m84072_230515_100731_s2/51056073/ccs\t1741\t1765\tSoChr01D:147168828183960\n", "1612\n" ] } ], "source": [ "if ab.max() > ba.max():\n", " idx = np.argmax(ab)\n", "else:\n", " idx = np.argmax(ba)\n", "\n", "left = sb[idx].end\n", "right = sb[idx + 1].start\n", "mid = (left + right) // 2\n", "print(sb[idx])\n", "print(sb[idx + 1])\n", "print(mid)" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "## Filter the ROI bed file" ] }, { "cell_type": "code", "execution_count": 34, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
[08/17/24 14:07:29] DEBUG    Load file                                                                   base.py:36\n",
       "                             `/Users/bao/projects/female-restitution/SoSs-filter/roi/9208-roi.bed`                 \n",
       "
\n" ], "text/plain": [ "\u001b[2;36m[08/17/24 14:07:29]\u001b[0m\u001b[2;36m \u001b[0m\u001b[32mDEBUG \u001b[0m Load file \u001b]8;id=77654;file:///Users/bao/code/jcvi/jcvi/formats/base.py\u001b\\\u001b[2mbase.py\u001b[0m\u001b]8;;\u001b\\\u001b[2m:\u001b[0m\u001b]8;id=606954;file:///Users/bao/code/jcvi/jcvi/formats/base.py#36\u001b\\\u001b[2m36\u001b[0m\u001b]8;;\u001b\\\n", "\u001b[2;36m \u001b[0m `\u001b[35m/Users/bao/projects/female-restitution/SoSs-filter/roi/\u001b[0m\u001b[95m9208-roi.bed\u001b[0m` \u001b[2m \u001b[0m\n" ] }, "metadata": {}, "output_type": "display_data" }, { "data": { "text/html": [ "
                    INFO     Counter({'SEQID_MISMATCH': 69, 'SECONDARY_MATCH': 4})                 2041333012.py:20\n",
       "
\n" ], "text/plain": [ "\u001b[2;36m \u001b[0m\u001b[2;36m \u001b[0m\u001b[34mINFO \u001b[0m \u001b[1;35mCounter\u001b[0m\u001b[1m(\u001b[0m\u001b[1m{\u001b[0m\u001b[32m'SEQID_MISMATCH'\u001b[0m: \u001b[1;36m69\u001b[0m, \u001b[32m'SECONDARY_MATCH'\u001b[0m: \u001b[1;36m4\u001b[0m\u001b[1m}\u001b[0m\u001b[1m)\u001b[0m \u001b]8;id=284222;file:///var/folders/dp/qjg_xdsd0jq6q5vkp4kl5zg80000gn/T/ipykernel_17492/2041333012.py\u001b\\\u001b[2m2041333012.py\u001b[0m\u001b]8;;\u001b\\\u001b[2m:\u001b[0m\u001b]8;id=679817;file:///var/folders/dp/qjg_xdsd0jq6q5vkp4kl5zg80000gn/T/ipykernel_17492/2041333012.py#20\u001b\\\u001b[2m20\u001b[0m\u001b]8;;\u001b\\\n" ] }, "metadata": {}, "output_type": "display_data" }, { "data": { "text/html": [ "
                    INFO     Total filtered: 1236                                                  2041333012.py:21\n",
       "
\n" ], "text/plain": [ "\u001b[2;36m \u001b[0m\u001b[2;36m \u001b[0m\u001b[34mINFO \u001b[0m Total filtered: \u001b[1;36m1236\u001b[0m \u001b]8;id=599890;file:///var/folders/dp/qjg_xdsd0jq6q5vkp4kl5zg80000gn/T/ipykernel_17492/2041333012.py\u001b\\\u001b[2m2041333012.py\u001b[0m\u001b]8;;\u001b\\\u001b[2m:\u001b[0m\u001b]8;id=937676;file:///var/folders/dp/qjg_xdsd0jq6q5vkp4kl5zg80000gn/T/ipykernel_17492/2041333012.py#21\u001b\\\u001b[2m21\u001b[0m\u001b]8;;\u001b\\\n" ] }, "metadata": {}, "output_type": "display_data" } ], "source": [ "from jcvi.apps.base import logger\n", "from collections import Counter\n", "\n", "bed = Bed(\"/Users/bao/projects/female-restitution/SoSs-filter/roi/9208-roi.bed\")\n", "filtered = []\n", "seen = {}\n", "counter = Counter()\n", "for b in bed:\n", " length = b.end - b.start\n", " seen[b.accn] = max(seen.get(b.accn, 0), length)\n", "for b in bed:\n", " expected_seqid = b.accn.split(\"|\")[1]\n", " if expected_seqid != b.seqid:\n", " counter[\"SEQID_MISMATCH\"] += 1\n", " continue\n", " if seen[b.accn] != b.end - b.start:\n", " counter[\"SECONDARY_MATCH\"] += 1\n", " continue\n", " filtered.append(b)\n", "logger.info(counter)\n", "logger.info(\"Total filtered: %d\", len(filtered))" ] }, { "cell_type": "code", "execution_count": 38, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "[[SoChr01A\t118800957\t118803912\tm84072_230515_103837_s3/69801496/ccs|SoChr01A|0-2954\t60\t-,\n", " SoChr01A\t118800966\t118804125\tm84072_230515_100731_s2/102829007/ccs|SoChr01A|0-3157\t60\t-,\n", " SoChr01A\t118800966\t118802787\tm84072_230515_100731_s2/184226232/ccs|SoChr01A|0-1826\t60\t-,\n", " SoChr01A\t118800966\t118802579\tm84072_230515_100731_s2/51056073/ccs|SoChr01A|0-1612\t60\t-,\n", " SoChr01A\t118800966\t118815083\tm84072_230515_103837_s3/114757534/ccs|SoChr01A|0-16177\t60\t-,\n", " SoChr01A\t118800966\t118804251\tm84072_230515_103837_s3/214240488/ccs|SoChr01A|0-3285\t60\t-,\n", " SoChr01A\t118800966\t118804423\tm84072_230515_103837_s3/96802497/ccs|SoChr01A|0-3458\t60\t-],\n", " [SoChr01B\t43136035\t43154544\tm84072_230515_100731_s2/103810093/ccs|SoChr01B|2786-21299\t60\t+,\n", " SoChr01B\t43136035\t43146586\tm84072_230515_100731_s2/163973073/ccs|SoChr01B|6151-16701\t60\t+,\n", " SoChr01B\t43136035\t43151470\tm84072_230515_100731_s2/246159031/ccs|SoChr01B|3389-18820\t60\t+,\n", " SoChr01B\t43136035\t43151243\tm84072_230515_103837_s3/104730961/ccs|SoChr01B|11855-27067\t60\t+,\n", " SoChr01B\t43136035\t43147657\tm84072_230515_103837_s3/130812980/ccs|SoChr01B|2762-14387\t60\t+,\n", " SoChr01B\t43136035\t43149466\tm84072_230515_103837_s3/228196963/ccs|SoChr01B|3199-16628\t60\t+,\n", " SoChr01B\t43136035\t43156619\tm84072_230515_103837_s3/237898617/ccs|SoChr01B|5489-26070\t60\t+,\n", " SoChr01B\t43136035\t43150232\tm84072_230515_103837_s3/44176013/ccs|SoChr01B|2290-16496\t60\t+,\n", " SoChr01B\t43136035\t43157414\tm84072_230515_103837_s3/58593168/ccs|SoChr01B|7031-28412\t60\t+,\n", " SoChr01B\t43136035\t43153700\tm84072_230515_103837_s3/90445395/ccs|SoChr01B|12495-30159\t60\t+,\n", " SoChr01B\t43136037\t43148075\tm84072_230515_100731_s2/231540847/ccs|SoChr01B|5256-17286\t60\t+,\n", " SoChr01B\t43136043\t43159709\tm84072_230515_103837_s3/165286688/ccs|SoChr01B|2298-26016\t60\t+,\n", " SoChr01B\t43136162\t43150681\tm84072_230515_103837_s3/229114536/ccs|SoChr01B|7875-22361\t60\t+],\n", " [SoChr01B\t86373250\t86393472\tm64292e_230406_090856/135070089/ccs|SoChr01B|0-20220\t60\t+,\n", " SoChr01B\t86376656\t86393472\tm84072_230515_103837_s3/156107566/ccs|SoChr01B|0-16816\t60\t+,\n", " SoChr01B\t86380010\t86393472\tm84072_230515_103837_s3/228918928/ccs|SoChr01B|0-13462\t60\t+,\n", " SoChr01B\t86381229\t86393472\tm84072_230515_103837_s3/167514038/ccs|SoChr01B|0-12254\t60\t+,\n", " SoChr01B\t86381683\t86393472\tm64292e_230406_090856/24644430/ccs|SoChr01B|0-11787\t60\t+,\n", " SoChr01B\t86381794\t86393473\tm84070_230525_081218_s1/136185273/ccs|SoChr01B|0-11685\t60\t+,\n", " SoChr01B\t86382021\t86393472\tm84070_230525_081218_s1/163645005/ccs|SoChr01B|0-11453\t60\t+,\n", " SoChr01B\t86382451\t86393472\tm64292e_230406_090856/49284469/ccs|SoChr01B|0-11025\t60\t+,\n", " SoChr01B\t86383663\t86393471\tm84072_230515_103837_s3/51711926/ccs|SoChr01B|0-9806\t60\t+,\n", " SoChr01B\t86383796\t86393472\tm84072_230515_103837_s3/199889968/ccs|SoChr01B|0-9674\t60\t+,\n", " SoChr01B\t86384007\t86393472\tm64292e_230406_090856/94438245/ccs|SoChr01B|0-9455\t60\t+,\n", " SoChr01B\t86385036\t86393472\tm84072_230515_103837_s3/259916967/ccs|SoChr01B|0-8441\t60\t+,\n", " SoChr01B\t86385101\t86393473\tm84072_230515_103837_s3/252776687/ccs|SoChr01B|0-8376\t60\t+],\n", " [SoChr01B\t86409404\t86433393\tm84072_230515_100731_s2/16061862/ccs|SoChr01B|3571-28312\t60\t+,\n", " SoChr01B\t86409404\t86422473\tm84072_230515_100731_s2/161547205/ccs|SoChr01B|406-14228\t60\t+,\n", " SoChr01B\t86409404\t86420344\tm84072_230515_100731_s2/165021654/ccs|SoChr01B|3201-14898\t60\t+,\n", " SoChr01B\t86409404\t86417790\tm84072_230515_100731_s2/257426747/ccs|SoChr01B|4576-13724\t60\t+,\n", " SoChr01B\t86409404\t86420678\tm84072_230515_100731_s2/74453513/ccs|SoChr01B|685-12716\t60\t+,\n", " SoChr01B\t86409404\t86427864\tm84072_230515_103837_s3/12517962/ccs|SoChr01B|3271-22479\t60\t+,\n", " SoChr01B\t86409404\t86425294\tm84072_230515_103837_s3/261558219/ccs|SoChr01B|5202-21851\t60\t+],\n", " [SoChr01C\t87511190\t87532783\tm84072_230515_103837_s3/84545864/ccs|SoChr01C|0-21619\t60\t+,\n", " SoChr01C\t87513593\t87532783\tm84072_230515_103837_s3/183895132/ccs|SoChr01C|0-19181\t60\t+,\n", " SoChr01C\t87516515\t87532783\tm84072_230515_100731_s2/73928793/ccs|SoChr01C|0-16227\t60\t+,\n", " SoChr01C\t87518201\t87532783\tm84070_230525_081218_s1/133431919/ccs|SoChr01C|0-14581\t60\t+,\n", " SoChr01C\t87518697\t87532783\tm84072_230515_100731_s2/29229208/ccs|SoChr01C|0-14086\t60\t+,\n", " SoChr01C\t87520816\t87532783\tm84072_230515_103837_s3/97584610/ccs|SoChr01C|0-11968\t60\t+,\n", " SoChr01C\t87522130\t87532787\tm84072_230515_100731_s2/36115164/ccs|SoChr01C|0-10655\t60\t+,\n", " SoChr01C\t87522449\t87532783\tm64292e_230406_090856/102236818/ccs|SoChr01C|0-10341\t60\t+,\n", " SoChr01C\t87522867\t87532783\tm84072_230515_103837_s3/107350610/ccs|SoChr01C|0-9919\t60\t+,\n", " SoChr01C\t87523759\t87532783\tm84072_230515_103837_s3/91819543/ccs|SoChr01C|0-9021\t60\t+,\n", " SoChr01C\t87524622\t87532783\tm84072_230515_103837_s3/16453979/ccs|SoChr01C|0-8164\t60\t+,\n", " SoChr01C\t87525208\t87532783\tm84072_230515_103837_s3/141823763/ccs|SoChr01C|0-7575\t60\t+,\n", " SoChr01C\t87525844\t87532783\tm84072_230515_100731_s2/139198536/ccs|SoChr01C|0-6938\t60\t+,\n", " SoChr01C\t87526389\t87532783\tm84072_230515_100731_s2/168495803/ccs|SoChr01C|0-6401\t60\t+,\n", " SoChr01C\t87527670\t87532783\tm84072_230515_103837_s3/242094070/ccs|SoChr01C|0-5114\t60\t+,\n", " SoChr01C\t87528555\t87532783\tm84072_230515_100731_s2/241895431/ccs|SoChr01C|0-4228\t60\t+,\n", " SoChr01C\t87529658\t87532783\tm84072_230515_103837_s3/113968571/ccs|SoChr01C|0-3126\t60\t+,\n", " SoChr01C\t87530139\t87532783\tm84072_230515_100731_s2/18092634/ccs|SoChr01C|0-2643\t60\t+],\n", " [SoChr01D\t80512238\t80523884\tm84072_230515_100731_s2/102829007/ccs|SoChr01D|3157-14806\t60\t+,\n", " SoChr01D\t80512238\t80519863\tm84072_230515_100731_s2/184226232/ccs|SoChr01D|1826-9448\t60\t+,\n", " SoChr01D\t80512238\t80525635\tm84072_230515_100731_s2/51056073/ccs|SoChr01D|1612-15012\t60\t+,\n", " SoChr01D\t80512238\t80528325\tm84072_230515_103837_s3/114757534/ccs|SoChr01D|16177-32264\t60\t+,\n", " SoChr01D\t80512238\t80524653\tm84072_230515_103837_s3/214240488/ccs|SoChr01D|3285-15702\t60\t+,\n", " SoChr01D\t80512238\t80524815\tm84072_230515_103837_s3/96802497/ccs|SoChr01D|3458-16033\t60\t+,\n", " SoChr01D\t80512247\t80525352\tm84072_230515_103837_s3/69801496/ccs|SoChr01D|2954-16062\t60\t+],\n", " [SoChr01E\t93438109\t93443691\tm64292e_230406_090856/102236818/ccs|SoChr01E|10341-15926\t60\t+,\n", " SoChr01E\t93438109\t93444289\tm84070_230525_081218_s1/133431919/ccs|SoChr01E|14581-20760\t60\t+,\n", " SoChr01E\t93438109\t93445018\tm84072_230515_100731_s2/139198536/ccs|SoChr01E|6938-13844\t60\t+,\n", " SoChr01E\t93438109\t93446455\tm84072_230515_100731_s2/168495803/ccs|SoChr01E|6401-14743\t60\t+,\n", " SoChr01E\t93438109\t93455627\tm84072_230515_100731_s2/18092634/ccs|SoChr01E|2643-20153\t60\t+,\n", " SoChr01E\t93438109\t93452931\tm84072_230515_100731_s2/241895431/ccs|SoChr01E|4228-19045\t60\t+,\n", " SoChr01E\t93438109\t93447401\tm84072_230515_100731_s2/29229208/ccs|SoChr01E|14086-23373\t60\t+,\n", " SoChr01E\t93438109\t93447161\tm84072_230515_100731_s2/73928793/ccs|SoChr01E|16227-25232\t60\t+,\n", " SoChr01E\t93438109\t93449635\tm84072_230515_103837_s3/107350610/ccs|SoChr01E|9919-21448\t60\t+,\n", " SoChr01E\t93438109\t93450053\tm84072_230515_103837_s3/113968571/ccs|SoChr01E|3126-15061\t60\t+,\n", " SoChr01E\t93438109\t93454327\tm84072_230515_103837_s3/141823763/ccs|SoChr01E|7575-23795\t60\t+,\n", " SoChr01E\t93438109\t93451126\tm84072_230515_103837_s3/16453979/ccs|SoChr01E|8164-21191\t60\t+,\n", " SoChr01E\t93438109\t93446190\tm84072_230515_103837_s3/183895132/ccs|SoChr01E|19181-27262\t60\t+,\n", " SoChr01E\t93438109\t93448133\tm84072_230515_103837_s3/242094070/ccs|SoChr01E|5114-15162\t60\t+,\n", " SoChr01E\t93438109\t93446917\tm84072_230515_103837_s3/84545864/ccs|SoChr01E|21619-30443\t60\t+,\n", " SoChr01E\t93438109\t93447340\tm84072_230515_103837_s3/91819543/ccs|SoChr01E|9021-18253\t60\t+,\n", " SoChr01E\t93438109\t93448745\tm84072_230515_103837_s3/97584610/ccs|SoChr01E|11968-22610\t60\t+,\n", " SoChr01E\t93438113\t93445440\tm84072_230515_100731_s2/36115164/ccs|SoChr01E|10655-17981\t60\t+],\n", " [SoChr01F\t9169424\t9178926\tm84072_230515_100731_s2/199950577/ccs|SoChr01F|0-9499\t60\t+,\n", " SoChr01F\t9171164\t9178773\tm84072_230515_103837_s3/145886018/ccs|SoChr01F|0-7607\t59\t+],\n", " [SoChr01F\t35486780\t35499274\tm84072_230515_103837_s3/90445395/ccs|SoChr01F|0-12495\t60\t+,\n", " SoChr01F\t35487420\t35499274\tm84072_230515_103837_s3/104730961/ccs|SoChr01F|0-11855\t60\t+,\n", " SoChr01F\t35491511\t35499401\tm84072_230515_103837_s3/229114536/ccs|SoChr01F|0-7875\t60\t+,\n", " SoChr01F\t35492240\t35499274\tm84072_230515_103837_s3/58593168/ccs|SoChr01F|0-7031\t60\t+,\n", " SoChr01F\t35493123\t35499274\tm84072_230515_100731_s2/163973073/ccs|SoChr01F|0-6151\t60\t+,\n", " SoChr01F\t35493785\t35499274\tm84072_230515_103837_s3/237898617/ccs|SoChr01F|0-5489\t60\t+,\n", " SoChr01F\t35494023\t35499276\tm84072_230515_100731_s2/231540847/ccs|SoChr01F|0-5256\t60\t+,\n", " SoChr01F\t35495886\t35499274\tm84072_230515_100731_s2/246159031/ccs|SoChr01F|0-3389\t60\t+,\n", " SoChr01F\t35496075\t35499274\tm84072_230515_103837_s3/228196963/ccs|SoChr01F|0-3199\t60\t+,\n", " SoChr01F\t35496486\t35499274\tm84072_230515_100731_s2/103810093/ccs|SoChr01F|0-2786\t60\t+,\n", " SoChr01F\t35496510\t35499274\tm84072_230515_103837_s3/130812980/ccs|SoChr01F|0-2762\t60\t+,\n", " SoChr01F\t35496986\t35499282\tm84072_230515_103837_s3/165286688/ccs|SoChr01F|0-2298\t60\t+,\n", " SoChr01F\t35496990\t35499274\tm84072_230515_103837_s3/44176013/ccs|SoChr01F|0-2290\t60\t+],\n", " [SoChr01F\t89164390\t89169859\tm84072_230515_103837_s3/51711926/ccs|SoChr01F|9806-15265\t60\t+,\n", " SoChr01F\t89164391\t89168189\tm64292e_230406_090856/135070089/ccs|SoChr01F|20220-24018\t60\t+,\n", " SoChr01F\t89164391\t89168107\tm64292e_230406_090856/24644430/ccs|SoChr01F|11787-15500\t60\t+,\n", " SoChr01F\t89164391\t89170679\tm64292e_230406_090856/49284469/ccs|SoChr01F|11025-17310\t60\t+,\n", " SoChr01F\t89164391\t89169721\tm64292e_230406_090856/94438245/ccs|SoChr01F|9455-14785\t60\t+,\n", " SoChr01F\t89164391\t89165593\tm84070_230525_081218_s1/163645005/ccs|SoChr01F|11453-12655\t60\t+,\n", " SoChr01F\t89164391\t89168049\tm84072_230515_103837_s3/156107566/ccs|SoChr01F|16816-20468\t60\t+,\n", " SoChr01F\t89164391\t89176235\tm84072_230515_103837_s3/167514038/ccs|SoChr01F|12254-24106\t60\t+,\n", " SoChr01F\t89164391\t89170301\tm84072_230515_103837_s3/199889968/ccs|SoChr01F|9674-15574\t60\t+,\n", " SoChr01F\t89164391\t89165398\tm84072_230515_103837_s3/228918928/ccs|SoChr01F|13462-14469\t60\t+,\n", " SoChr01F\t89164391\t89168832\tm84072_230515_103837_s3/259916967/ccs|SoChr01F|8441-12886\t60\t+,\n", " SoChr01F\t89164392\t89172179\tm84070_230525_081218_s1/136185273/ccs|SoChr01F|11685-19468\t60\t+,\n", " SoChr01F\t89164392\t89169376\tm84072_230515_103837_s3/252776687/ccs|SoChr01F|8376-13358\t60\t+],\n", " [SoChr01H\t26849998\t26865839\tm84072_230515_100731_s2/199950577/ccs|SoChr01H|9499-27170\t60\t+,\n", " SoChr01H\t26849998\t26860356\tm84072_230515_103837_s3/145886018/ccs|SoChr01H|7607-19054\t60\t+],\n", " [SoChr01H\t89368325\t89369012\tm84072_230515_100731_s2/74453513/ccs|SoChr01H|0-685\t60\t+,\n", " SoChr01H\t89368607\t89369012\tm84072_230515_100731_s2/161547205/ccs|SoChr01H|0-406\t60\t+],\n", " [SoChr02A\t49279285\t49305190\tm84072_230515_100731_s2/168561712/ccs|SoChr02A|0-25896\t60\t+,\n", " SoChr02A\t49282515\t49305461\tm84072_230515_100731_s2/161153193/ccs|SoChr02A|0-22928\t60\t+,\n", " SoChr02A\t49287617\t49305190\tm84072_230515_100731_s2/216929013/ccs|SoChr02A|0-17570\t60\t+,\n", " SoChr02A\t49289124\t49305191\tm84072_230515_103837_s3/12976651/ccs|SoChr02A|0-16050\t60\t+,\n", " SoChr02A\t49289907\t49305200\tm84072_230515_103837_s3/224002205/ccs|SoChr02A|0-15292\t60\t+,\n", " SoChr02A\t49289940\t49305190\tm84072_230515_103837_s3/8128848/ccs|SoChr02A|0-15254\t60\t+,\n", " SoChr02A\t49290030\t49305190\tm84072_230515_103837_s3/41814828/ccs|SoChr02A|0-15157\t60\t+,\n", " SoChr02A\t49291036\t49305162\tm84072_230515_103837_s3/188351295/ccs|SoChr02A|0-14117\t60\t+,\n", " SoChr02A\t49291086\t49305190\tm84072_230515_100731_s2/162203462/ccs|SoChr02A|0-14101\t60\t+,\n", " SoChr02A\t49293210\t49305190\tm84072_230515_100731_s2/169480395/ccs|SoChr02A|0-11964\t60\t+,\n", " SoChr02A\t49295275\t49305189\tm84072_230515_100731_s2/174067132/ccs|SoChr02A|0-9914\t60\t+,\n", " SoChr02A\t49296454\t49305190\tm64292e_230406_090856/1378287/ccs|SoChr02A|0-8735\t60\t+,\n", " SoChr02A\t49298596\t49305190\tm84072_230515_100731_s2/6949924/ccs|SoChr02A|0-6594\t60\t+,\n", " SoChr02A\t49298812\t49305135\tm84072_230515_103837_s3/249037282/ccs|SoChr02A|0-6330\t60\t+,\n", " SoChr02A\t49299828\t49305461\tm84072_230515_100731_s2/66197068/ccs|SoChr02A|0-5648\t60\t+,\n", " SoChr02A\t49300254\t49305190\tm84072_230515_100731_s2/167577208/ccs|SoChr02A|0-4943\t60\t+,\n", " SoChr02A\t49300447\t49305190\tm84072_230515_103837_s3/254482131/ccs|SoChr02A|0-4743\t60\t+,\n", " SoChr02A\t49300507\t49305135\tm84072_230515_100731_s2/28577051/ccs|SoChr02A|0-4629\t60\t+,\n", " SoChr02A\t49300628\t49305190\tm84072_230515_103837_s3/135004298/ccs|SoChr02A|0-4559\t60\t+,\n", " SoChr02A\t49300820\t49305190\tm84072_230515_100731_s2/68686259/ccs|SoChr02A|0-4372\t60\t+,\n", " SoChr02A\t49301067\t49305190\tm64292e_230406_090856/63833145/ccs|SoChr02A|0-4122\t60\t+,\n", " SoChr02A\t49301139\t49305190\tm84072_230515_100731_s2/119934444/ccs|SoChr02A|0-4052\t60\t+,\n", " SoChr02A\t49301274\t49305190\tm84072_230515_100731_s2/159451258/ccs|SoChr02A|0-3918\t60\t+],\n", " [SoChr02C\t47192759\t47214825\tm84072_230515_100731_s2/28577051/ccs|SoChr02C|4629-26687\t60\t+,\n", " SoChr02C\t47192759\t47208610\tm84072_230515_103837_s3/249037282/ccs|SoChr02C|6330-22187\t60\t+,\n", " SoChr02C\t47192786\t47196426\tm84072_230515_103837_s3/188351295/ccs|SoChr02C|14117-17756\t60\t+,\n", " SoChr02C\t47192813\t47201530\tm84072_230515_100731_s2/174067132/ccs|SoChr02C|9914-18644\t60\t+,\n", " SoChr02C\t47192814\t47195867\tm64292e_230406_090856/1378287/ccs|SoChr02C|8735-11788\t60\t+,\n", " SoChr02C\t47192814\t47200486\tm64292e_230406_090856/63833145/ccs|SoChr02C|4122-11795\t60\t+,\n", " SoChr02C\t47192814\t47209026\tm84072_230515_100731_s2/119934444/ccs|SoChr02C|4052-20260\t60\t+,\n", " SoChr02C\t47192814\t47203761\tm84072_230515_100731_s2/159451258/ccs|SoChr02C|3918-14868\t60\t+,\n", " SoChr02C\t47192814\t47199500\tm84072_230515_100731_s2/162203462/ccs|SoChr02C|14101-20787\t60\t+,\n", " SoChr02C\t47192814\t47202793\tm84072_230515_100731_s2/167577208/ccs|SoChr02C|4943-14922\t60\t+,\n", " SoChr02C\t47192814\t47203431\tm84072_230515_100731_s2/168561712/ccs|SoChr02C|25896-36510\t60\t+,\n", " SoChr02C\t47192814\t47200257\tm84072_230515_100731_s2/169480395/ccs|SoChr02C|11964-19401\t60\t+,\n", " SoChr02C\t47192814\t47199246\tm84072_230515_100731_s2/216929013/ccs|SoChr02C|17570-23998\t60\t+,\n", " SoChr02C\t47192814\t47209962\tm84072_230515_100731_s2/68686259/ccs|SoChr02C|4372-21526\t60\t+,\n", " SoChr02C\t47192814\t47212015\tm84072_230515_100731_s2/6949924/ccs|SoChr02C|6594-25797\t60\t+,\n", " SoChr02C\t47192814\t47205888\tm84072_230515_103837_s3/135004298/ccs|SoChr02C|4559-17629\t60\t+,\n", " SoChr02C\t47192814\t47204598\tm84072_230515_103837_s3/254482131/ccs|SoChr02C|4743-16525\t60\t+,\n", " SoChr02C\t47192814\t47205732\tm84072_230515_103837_s3/41814828/ccs|SoChr02C|15157-28082\t60\t+,\n", " SoChr02C\t47192814\t47197313\tm84072_230515_103837_s3/8128848/ccs|SoChr02C|15254-19754\t60\t+,\n", " SoChr02C\t47192815\t47199540\tm84072_230515_103837_s3/12976651/ccs|SoChr02C|16050-22778\t60\t+,\n", " SoChr02C\t47192824\t47198197\tm84072_230515_103837_s3/224002205/ccs|SoChr02C|15292-20662\t60\t+,\n", " SoChr02C\t47193087\t47200703\tm84072_230515_100731_s2/161153193/ccs|SoChr02C|22928-30550\t60\t+,\n", " SoChr02C\t47193087\t47194634\tm84072_230515_100731_s2/66197068/ccs|SoChr02C|5648-7198\t60\t+],\n", " [SoChr02E\t20363969\t20379881\tm84072_230515_100731_s2/81397974/ccs|SoChr02E|0-15785\t48\t+,\n", " SoChr02E\t20364871\t20379883\tm84072_230515_100731_s2/94045914/ccs|SoChr02E|0-14901\t46\t+,\n", " SoChr02E\t20367192\t20379882\tm64292e_230406_090856/128910716/ccs|SoChr02E|0-12691\t48\t+,\n", " SoChr02E\t20367475\t20379482\tm84072_230515_103837_s3/258019391/ccs|SoChr02E|0-12008\t52\t+,\n", " SoChr02E\t20368345\t20379487\tm84072_230515_103837_s3/165352629/ccs|SoChr02E|0-11141\t54\t+,\n", " SoChr02E\t20369624\t20379486\tm84072_230515_100731_s2/158011613/ccs|SoChr02E|0-9865\t57\t+,\n", " SoChr02E\t20374916\t20379471\tm84072_230515_100731_s2/196545860/ccs|SoChr02E|0-4554\t41\t+],\n", " [SoChr02E\t83164447\t83169180\tm64292e_230406_090856/44695560/ccs|SoChr02E|7556-12289\t60\t+,\n", " SoChr02E\t83164447\t83174223\tm84072_230515_100731_s2/118228007/ccs|SoChr02E|9245-19021\t60\t+,\n", " SoChr02E\t83164447\t83173778\tm84072_230515_100731_s2/160302408/ccs|SoChr02E|10248-19582\t60\t+,\n", " SoChr02E\t83164447\t83170838\tm84072_230515_103837_s3/140248634/ccs|SoChr02E|9782-16173\t60\t+,\n", " SoChr02E\t83164447\t83174463\tm84072_230515_103837_s3/187042569/ccs|SoChr02E|9911-19917\t60\t+,\n", " SoChr02E\t83164447\t83171108\tm84072_230515_103837_s3/90181502/ccs|SoChr02E|10914-17575\t60\t+,\n", " SoChr02E\t83164448\t83173320\tm64292e_230406_090856/20121172/ccs|SoChr02E|10289-19151\t60\t+,\n", " SoChr02E\t83164497\t83171786\tm84072_230515_100731_s2/130288551/ccs|SoChr02E|15716-23001\t60\t+,\n", " SoChr02E\t83164498\t83172097\tm84072_230515_103837_s3/251072771/ccs|SoChr02E|8120-15698\t60\t+,\n", " SoChr02E\t83165623\t83169352\tm84072_230515_103837_s3/241631881/ccs|SoChr02E|11397-15107\t60\t+],\n", " [SoChr02F\t24366252\t24376563\tm84072_230515_100731_s2/196545860/ccs|SoChr02F|4554-14839\t60\t+,\n", " SoChr02F\t24366267\t24370950\tm84072_230515_100731_s2/158011613/ccs|SoChr02F|9865-14547\t60\t+,\n", " SoChr02F\t24366268\t24372776\tm84072_230515_103837_s3/165352629/ccs|SoChr02F|11141-17654\t60\t+,\n", " SoChr02F\t24366270\t24374472\tm84072_230515_103837_s3/258019391/ccs|SoChr02F|12008-20215\t60\t+,\n", " SoChr02F\t24366669\t24377572\tm64292e_230406_090856/128910716/ccs|SoChr02F|12691-23599\t60\t+,\n", " SoChr02F\t24366669\t24374041\tm84072_230515_100731_s2/81397974/ccs|SoChr02F|15785-23159\t60\t+,\n", " SoChr02F\t24366669\t24376937\tm84072_230515_100731_s2/94045914/ccs|SoChr02F|14901-25161\t60\t+],\n", " [SoChr02F\t91067170\t91082894\tm84072_230515_100731_s2/130288551/ccs|SoChr02F|0-15716\t60\t+,\n", " SoChr02F\t91071927\t91082844\tm84072_230515_103837_s3/90181502/ccs|SoChr02F|0-10914\t60\t+,\n", " SoChr02F\t91072536\t91082845\tm64292e_230406_090856/20121172/ccs|SoChr02F|0-10289\t60\t+,\n", " SoChr02F\t91072569\t91084014\tm84072_230515_103837_s3/241631881/ccs|SoChr02F|0-11397\t60\t+,\n", " SoChr02F\t91072590\t91082844\tm84072_230515_100731_s2/160302408/ccs|SoChr02F|0-10248\t60\t+,\n", " SoChr02F\t91072920\t91082844\tm84072_230515_103837_s3/187042569/ccs|SoChr02F|0-9911\t60\t+,\n", " SoChr02F\t91073061\t91082844\tm84072_230515_103837_s3/140248634/ccs|SoChr02F|0-9782\t60\t+,\n", " SoChr02F\t91073593\t91082844\tm84072_230515_100731_s2/118228007/ccs|SoChr02F|0-9245\t60\t+,\n", " SoChr02F\t91074751\t91082895\tm84072_230515_103837_s3/251072771/ccs|SoChr02F|0-8120\t60\t+,\n", " SoChr02F\t91075285\t91082844\tm64292e_230406_090856/44695560/ccs|SoChr02F|0-7556\t60\t+],\n", " [SoChr03B\t18810616\t18828325\tm84072_230515_100731_s2/199819788/ccs|SoChr03B|7491-25156\t60\t+,\n", " SoChr03B\t18810617\t18816161\tm84072_230515_103837_s3/59179358/ccs|SoChr03B|10061-15607\t60\t+,\n", " SoChr03B\t18810618\t18833285\tm84072_230515_103837_s3/235280280/ccs|SoChr03B|11059-33752\t60\t+,\n", " SoChr03B\t18810619\t18822863\tm84072_230515_103837_s3/225774114/ccs|SoChr03B|7595-19829\t60\t+,\n", " SoChr03B\t18810623\t18818857\tm84072_230515_103837_s3/178327673/ccs|SoChr03B|8141-16383\t60\t+,\n", " SoChr03B\t18810624\t18824555\tm84070_230525_081218_s1/39059868/ccs|SoChr03B|8289-22233\t60\t+,\n", " SoChr03B\t18810624\t18821177\tm84072_230515_100731_s2/176624674/ccs|SoChr03B|7154-17706\t60\t+,\n", " SoChr03B\t18810624\t18819212\tm84072_230515_100731_s2/191302941/ccs|SoChr03B|15020-23603\t60\t+,\n", " SoChr03B\t18810624\t18826171\tm84072_230515_100731_s2/264835027/ccs|SoChr03B|4130-19668\t60\t+,\n", " SoChr03B\t18810624\t18822116\tm84072_230515_100731_s2/35654323/ccs|SoChr03B|16770-28240\t60\t+,\n", " SoChr03B\t18810624\t18816745\tm84072_230515_100731_s2/6226699/ccs|SoChr03B|10453-16572\t60\t+,\n", " SoChr03B\t18810624\t18823324\tm84072_230515_100731_s2/69207941/ccs|SoChr03B|12387-25086\t60\t+,\n", " SoChr03B\t18810624\t18819755\tm84072_230515_103837_s3/100210610/ccs|SoChr03B|7110-16242\t60\t+,\n", " SoChr03B\t18810624\t18814584\tm84072_230515_103837_s3/172491061/ccs|SoChr03B|9984-13943\t60\t+,\n", " SoChr03B\t18810624\t18819290\tm84072_230515_103837_s3/39191403/ccs|SoChr03B|12266-20930\t60\t+,\n", " SoChr03B\t18810624\t18827549\tm84072_230515_103837_s3/51778944/ccs|SoChr03B|11377-28320\t60\t+,\n", " SoChr03B\t18810624\t18832402\tm84072_230515_103837_s3/71368804/ccs|SoChr03B|3969-25732\t60\t+,\n", " SoChr03B\t18810625\t18829417\tm84072_230515_100731_s2/171901774/ccs|SoChr03B|4740-23518\t60\t+,\n", " SoChr03B\t18810625\t18819820\tm84072_230515_100731_s2/98964975/ccs|SoChr03B|6226-15417\t60\t+,\n", " SoChr03B\t18810631\t18814534\tm64292e_230406_090856/146016753/ccs|SoChr03B|10630-14538\t60\t+],\n", " [SoChr03D\t45444894\t45457816\tm84070_230525_081218_s1/106105916/ccs|SoChr03D|14068-26989\t60\t+,\n", " SoChr03D\t45444894\t45468150\tm84072_230515_100731_s2/211752857/ccs|SoChr03D|1842-25096\t60\t+,\n", " SoChr03D\t45444894\t45460226\tm84072_230515_100731_s2/66060835/ccs|SoChr03D|4462-19779\t60\t+,\n", " SoChr03D\t45444894\t45471200\tm84072_230515_103837_s3/251204440/ccs|SoChr03D|7824-34135\t60\t+,\n", " SoChr03D\t45444895\t45454528\tm64292e_230406_090856/96993931/ccs|SoChr03D|1601-11234\t60\t+,\n", " SoChr03D\t45444895\t45460289\tm84070_230525_081218_s1/82053471/ccs|SoChr03D|5224-20622\t60\t+,\n", " SoChr03D\t45444895\t45454975\tm84072_230515_100731_s2/104795935/ccs|SoChr03D|4890-14971\t60\t+,\n", " SoChr03D\t45444895\t45458161\tm84072_230515_100731_s2/148311482/ccs|SoChr03D|3595-16857\t60\t+,\n", " SoChr03D\t45444895\t45458955\tm84072_230515_100731_s2/178391249/ccs|SoChr03D|11543-25597\t60\t+,\n", " SoChr03D\t45444895\t45452804\tm84072_230515_100731_s2/202708337/ccs|SoChr03D|4779-12689\t60\t+,\n", " SoChr03D\t45444895\t45448236\tm84072_230515_100731_s2/208799203/ccs|SoChr03D|12289-15629\t60\t+,\n", " SoChr03D\t45444895\t45453194\tm84072_230515_100731_s2/215226117/ccs|SoChr03D|15949-24245\t60\t+,\n", " SoChr03D\t45444895\t45459493\tm84072_230515_100731_s2/217581539/ccs|SoChr03D|5187-19784\t60\t+,\n", " SoChr03D\t45444895\t45453706\tm84072_230515_100731_s2/234819548/ccs|SoChr03D|3359-12166\t60\t+,\n", " SoChr03D\t45444895\t45454302\tm84072_230515_100731_s2/242095735/ccs|SoChr03D|9841-19243\t60\t+,\n", " SoChr03D\t45444895\t45465759\tm84072_230515_100731_s2/61214702/ccs|SoChr03D|7933-28741\t60\t+,\n", " SoChr03D\t45444895\t45453427\tm84072_230515_103837_s3/132584293/ccs|SoChr03D|5264-13796\t60\t+,\n", " SoChr03D\t45444895\t45459590\tm84072_230515_103837_s3/153422974/ccs|SoChr03D|11092-25784\t60\t+,\n", " SoChr03D\t45444895\t45451923\tm84072_230515_103837_s3/165413420/ccs|SoChr03D|7384-14411\t60\t+,\n", " SoChr03D\t45444895\t45458831\tm84072_230515_103837_s3/215681259/ccs|SoChr03D|1629-15574\t60\t+,\n", " SoChr03D\t45444895\t45458389\tm84072_230515_103837_s3/25692917/ccs|SoChr03D|1348-14841\t60\t+,\n", " SoChr03D\t45444895\t45450773\tm84072_230515_103837_s3/35260414/ccs|SoChr03D|14940-20823\t60\t+,\n", " SoChr03D\t45444896\t45456602\tm84072_230515_103837_s3/197134208/ccs|SoChr03D|13436-25147\t60\t+,\n", " SoChr03D\t45444897\t45451085\tm84072_230515_100731_s2/228919019/ccs|SoChr03D|7396-13575\t60\t+,\n", " SoChr03D\t45444899\t45460210\tm84070_230525_081218_s1/100273445/ccs|SoChr03D|6266-21594\t60\t+],\n", " [SoChr03F\t49275422\t49291410\tm84072_230515_100731_s2/215226117/ccs|SoChr03F|0-15949\t60\t+,\n", " SoChr03F\t49276480\t49291410\tm84072_230515_103837_s3/35260414/ccs|SoChr03F|0-14940\t60\t+,\n", " SoChr03F\t49277340\t49291409\tm84070_230525_081218_s1/106105916/ccs|SoChr03F|0-14068\t60\t+,\n", " SoChr03F\t49277962\t49291411\tm84072_230515_103837_s3/197134208/ccs|SoChr03F|0-13436\t60\t+,\n", " SoChr03F\t49279122\t49291410\tm84072_230515_100731_s2/208799203/ccs|SoChr03F|0-12289\t60\t+,\n", " SoChr03F\t49279864\t49291410\tm84072_230515_100731_s2/178391249/ccs|SoChr03F|0-11543\t60\t+,\n", " SoChr03F\t49280306\t49291410\tm84072_230515_103837_s3/153422974/ccs|SoChr03F|0-11092\t60\t+,\n", " SoChr03F\t49281567\t49291410\tm84072_230515_100731_s2/242095735/ccs|SoChr03F|0-9841\t60\t+,\n", " SoChr03F\t49283474\t49291410\tm84072_230515_100731_s2/61214702/ccs|SoChr03F|0-7933\t60\t+,\n", " SoChr03F\t49283581\t49291409\tm84072_230515_103837_s3/251204440/ccs|SoChr03F|0-7824\t60\t+,\n", " SoChr03F\t49284010\t49291412\tm84072_230515_100731_s2/228919019/ccs|SoChr03F|0-7396\t60\t+,\n", " SoChr03F\t49284025\t49291410\tm84072_230515_103837_s3/165413420/ccs|SoChr03F|0-7384\t60\t+,\n", " SoChr03F\t49285153\t49291414\tm84070_230525_081218_s1/100273445/ccs|SoChr03F|0-6266\t60\t+,\n", " SoChr03F\t49286147\t49291410\tm84072_230515_103837_s3/132584293/ccs|SoChr03F|0-5264\t60\t+,\n", " SoChr03F\t49286188\t49291410\tm84070_230525_081218_s1/82053471/ccs|SoChr03F|0-5224\t60\t+,\n", " SoChr03F\t49286219\t49291410\tm84072_230515_100731_s2/217581539/ccs|SoChr03F|0-5187\t60\t+,\n", " SoChr03F\t49286519\t49291410\tm84072_230515_100731_s2/104795935/ccs|SoChr03F|0-4890\t60\t+,\n", " SoChr03F\t49286630\t49291410\tm84072_230515_100731_s2/202708337/ccs|SoChr03F|0-4779\t60\t+,\n", " SoChr03F\t49286956\t49291409\tm84072_230515_100731_s2/66060835/ccs|SoChr03F|0-4462\t60\t+,\n", " SoChr03F\t49287814\t49291410\tm84072_230515_100731_s2/148311482/ccs|SoChr03F|0-3595\t60\t+,\n", " SoChr03F\t49288053\t49291410\tm84072_230515_100731_s2/234819548/ccs|SoChr03F|0-3359\t60\t+,\n", " SoChr03F\t49289567\t49291409\tm84072_230515_100731_s2/211752857/ccs|SoChr03F|0-1842\t60\t+,\n", " SoChr03F\t49289780\t49291410\tm84072_230515_103837_s3/215681259/ccs|SoChr03F|0-1629\t60\t+,\n", " SoChr03F\t49289810\t49291410\tm64292e_230406_090856/96993931/ccs|SoChr03F|0-1601\t60\t+,\n", " SoChr03F\t49290070\t49291410\tm84072_230515_103837_s3/25692917/ccs|SoChr03F|0-1348\t60\t+],\n", " [SoChr03G\t17976620\t17993407\tm84072_230515_100731_s2/35654323/ccs|SoChr03G|0-16770\t60\t+,\n", " SoChr03G\t17978365\t17993407\tm84072_230515_100731_s2/191302941/ccs|SoChr03G|0-15020\t60\t+,\n", " SoChr03G\t17981016\t17993407\tm84072_230515_100731_s2/69207941/ccs|SoChr03G|0-12387\t60\t+,\n", " SoChr03G\t17981139\t17993407\tm84072_230515_103837_s3/39191403/ccs|SoChr03G|0-12266\t60\t+,\n", " SoChr03G\t17982045\t17993407\tm84072_230515_103837_s3/51778944/ccs|SoChr03G|0-11377\t60\t+,\n", " SoChr03G\t17982360\t17993401\tm84072_230515_103837_s3/235280280/ccs|SoChr03G|0-11059\t60\t+,\n", " SoChr03G\t17982795\t17993414\tm64292e_230406_090856/146016753/ccs|SoChr03G|0-10630\t60\t+,\n", " SoChr03G\t17982950\t17993407\tm84072_230515_100731_s2/6226699/ccs|SoChr03G|0-10453\t60\t+,\n", " SoChr03G\t17983328\t17993400\tm84072_230515_103837_s3/59179358/ccs|SoChr03G|0-10061\t60\t+,\n", " SoChr03G\t17983424\t17993407\tm84072_230515_103837_s3/172491061/ccs|SoChr03G|0-9984\t60\t+,\n", " SoChr03G\t17985122\t17993407\tm84070_230525_081218_s1/39059868/ccs|SoChr03G|0-8289\t60\t+,\n", " SoChr03G\t17985267\t17993406\tm84072_230515_103837_s3/178327673/ccs|SoChr03G|0-8141\t60\t+,\n", " SoChr03G\t17985798\t17993402\tm84072_230515_103837_s3/225774114/ccs|SoChr03G|0-7595\t60\t+,\n", " SoChr03G\t17985913\t17993399\tm84072_230515_100731_s2/199819788/ccs|SoChr03G|0-7491\t60\t+,\n", " SoChr03G\t17986253\t17993407\tm84072_230515_100731_s2/176624674/ccs|SoChr03G|0-7154\t60\t+,\n", " SoChr03G\t17986288\t17993407\tm84072_230515_103837_s3/100210610/ccs|SoChr03G|0-7110\t60\t+,\n", " SoChr03G\t17987175\t17993408\tm84072_230515_100731_s2/98964975/ccs|SoChr03G|0-6226\t60\t+,\n", " SoChr03G\t17988666\t17993408\tm84072_230515_100731_s2/171901774/ccs|SoChr03G|0-4740\t60\t+,\n", " SoChr03G\t17989275\t17993407\tm84072_230515_100731_s2/264835027/ccs|SoChr03G|0-4130\t60\t+,\n", " SoChr03G\t17989460\t17993407\tm84072_230515_103837_s3/71368804/ccs|SoChr03G|0-3969\t60\t+],\n", " [SoChr05B\t29369852\t29377109\tm84072_230515_100731_s2/132779650/ccs|SoChr05B|8815-16074\t24\t+,\n", " SoChr05B\t29369852\t29375295\tm84072_230515_103837_s3/119213460/ccs|SoChr05B|30708-36161\t15\t+,\n", " SoChr05B\t29369852\t29373567\tm84072_230515_103837_s3/138220909/ccs|SoChr05B|13391-17105\t1\t+,\n", " SoChr05B\t29369853\t29375549\tm84072_230515_100731_s2/239798191/ccs|SoChr05B|21976-27679\t12\t+,\n", " SoChr05B\t29369856\t29373760\tm84072_230515_103837_s3/133435217/ccs|SoChr05B|16446-20351\t12\t+],\n", " [SoChr05D\t24437449\t24468152\tm84072_230515_103837_s3/119213460/ccs|SoChr05D|0-30708\t60\t+,\n", " SoChr05D\t24445372\t24468153\tm84072_230515_103837_s3/227215066/ccs|SoChr05D|0-22777\t60\t+,\n", " SoChr05D\t24446158\t24468153\tm84072_230515_100731_s2/239798191/ccs|SoChr05D|0-21976\t60\t+,\n", " SoChr05D\t24451704\t24468156\tm84072_230515_103837_s3/133435217/ccs|SoChr05D|0-16446\t60\t+,\n", " SoChr05D\t24454763\t24468152\tm84072_230515_103837_s3/138220909/ccs|SoChr05D|0-13391\t60\t+,\n", " SoChr05D\t24459335\t24468152\tm84072_230515_100731_s2/132779650/ccs|SoChr05D|0-8815\t58\t+,\n", " SoChr05D\t24462934\t24467057\tm64292e_230406_090856/20580664/ccs|SoChr05D|0-4116\t60\t+],\n", " [SoChr06C\t35023043\t35026846\tm84070_230525_081218_s1/162535286/ccs|SoChr06C|0-3807\t60\t+,\n", " SoChr06C\t35023627\t35026846\tm84072_230515_100731_s2/245238802/ccs|SoChr06C|0-3222\t60\t+,\n", " SoChr06C\t35023630\t35026846\tm84072_230515_100731_s2/251528746/ccs|SoChr06C|0-3217\t60\t+,\n", " SoChr06C\t35024146\t35026846\tm84072_230515_103837_s3/20447285/ccs|SoChr06C|0-2702\t60\t+,\n", " SoChr06C\t35025745\t35026846\tm84072_230515_100731_s2/78059125/ccs|SoChr06C|0-1103\t24\t+],\n", " [SoChr06D\t36030773\t36035403\tm84072_230515_103837_s3/98828504/ccs|SoChr06D|19010-23638\t4\t+,\n", " SoChr06D\t36030784\t36033967\tm84072_230515_100731_s2/261558671/ccs|SoChr06D|27821-30987\t8\t+,\n", " SoChr06D\t36030784\t36034988\tm84072_230515_103837_s3/122553542/ccs|SoChr06D|9673-13875\t5\t+,\n", " SoChr06D\t36030784\t36035875\tm84072_230515_103837_s3/227087452/ccs|SoChr06D|15210-20302\t4\t+,\n", " SoChr06D\t36030784\t36033794\tm84072_230515_103837_s3/80807106/ccs|SoChr06D|19318-22328\t7\t+,\n", " SoChr06D\t36030785\t36034867\tm84072_230515_100731_s2/166004910/ccs|SoChr06D|11298-15381\t5\t+,\n", " SoChr06D\t36030853\t36032030\tm84072_230515_100731_s2/256443205/ccs|SoChr06D|16657-17843\t0\t+],\n", " [SoChr06E\t39115809\t39128317\tm84072_230515_103837_s3/42273232/ccs|SoChr06E|8425-20939\t60\t+,\n", " SoChr06E\t39115824\t39120063\tm84072_230515_103837_s3/101387147/ccs|SoChr06E|11896-16122\t60\t+,\n", " SoChr06E\t39115831\t39124313\tm84072_230515_100731_s2/179702372/ccs|SoChr06E|16602-25071\t60\t+,\n", " SoChr06E\t39115832\t39122515\tm64292e_230406_090856/111740633/ccs|SoChr06E|9430-16112\t60\t+,\n", " SoChr06E\t39115832\t39135453\tm64292e_230406_090856/18024240/ccs|SoChr06E|2414-22295\t60\t+,\n", " SoChr06E\t39115832\t39132829\tm84070_230525_081218_s1/115479691/ccs|SoChr06E|3197-20463\t60\t+,\n", " SoChr06E\t39115832\t39130206\tm84072_230515_100731_s2/17892452/ccs|SoChr06E|5078-19722\t60\t+,\n", " SoChr06E\t39115832\t39117964\tm84072_230515_100731_s2/193466098/ccs|SoChr06E|18757-20889\t60\t+,\n", " SoChr06E\t39115832\t39127371\tm84072_230515_100731_s2/227477991/ccs|SoChr06E|2451-13987\t60\t+,\n", " SoChr06E\t39115832\t39126082\tm84072_230515_100731_s2/246879475/ccs|SoChr06E|3561-13809\t60\t+,\n", " SoChr06E\t39115832\t39130823\tm84072_230515_100731_s2/265950028/ccs|SoChr06E|1793-17044\t60\t+,\n", " SoChr06E\t39115832\t39128381\tm84072_230515_103837_s3/12061187/ccs|SoChr06E|5842-18760\t60\t+,\n", " SoChr06E\t39115832\t39118929\tm84072_230515_103837_s3/137564818/ccs|SoChr06E|14118-17216\t60\t+,\n", " SoChr06E\t39115832\t39118153\tm84072_230515_103837_s3/146867599/ccs|SoChr06E|16060-18381\t60\t+,\n", " SoChr06E\t39115832\t39121807\tm84072_230515_103837_s3/63243468/ccs|SoChr06E|11916-17891\t60\t+],\n", " [SoChr06F\t39733726\t39763654\tm84070_230525_081218_s1/162535286/ccs|SoChr06F|3807-33783\t60\t+,\n", " SoChr06F\t39733726\t39754757\tm84072_230515_100731_s2/245238802/ccs|SoChr06F|3222-24252\t60\t+,\n", " SoChr06F\t39733726\t39759613\tm84072_230515_100731_s2/251528746/ccs|SoChr06F|3217-29071\t60\t+,\n", " SoChr06F\t39733726\t39750409\tm84072_230515_100731_s2/78059125/ccs|SoChr06F|1103-17785\t60\t+,\n", " SoChr06F\t39733726\t39759917\tm84072_230515_100731_s2/93525085/ccs|SoChr06F|1941-28066\t60\t+,\n", " SoChr06F\t39733726\t39750869\tm84072_230515_103837_s3/20447285/ccs|SoChr06F|2702-19852\t60\t+,\n", " SoChr06F\t39738421\t39766294\tm84072_230515_100731_s2/261558671/ccs|SoChr06F|0-27821\t60\t+,\n", " SoChr06F\t39746977\t39766294\tm84072_230515_103837_s3/80807106/ccs|SoChr06F|0-19318\t60\t+,\n", " SoChr06F\t39747266\t39766283\tm84072_230515_103837_s3/98828504/ccs|SoChr06F|0-19010\t60\t+,\n", " SoChr06F\t39749663\t39766363\tm84072_230515_100731_s2/256443205/ccs|SoChr06F|0-16657\t60\t+,\n", " SoChr06F\t39750219\t39766294\tm84072_230515_100731_s2/110429932/ccs|SoChr06F|0-16062\t60\t+,\n", " SoChr06F\t39751084\t39766294\tm84072_230515_103837_s3/227087452/ccs|SoChr06F|0-15210\t60\t+,\n", " SoChr06F\t39752601\t39766295\tm84072_230515_103837_s3/132585024/ccs|SoChr06F|0-13695\t60\t+,\n", " SoChr06F\t39752856\t39766295\tm84072_230515_103837_s3/196875004/ccs|SoChr06F|0-13437\t60\t+,\n", " SoChr06F\t39754999\t39766295\tm84072_230515_100731_s2/166004910/ccs|SoChr06F|0-11298\t60\t+,\n", " SoChr06F\t39756624\t39766294\tm84072_230515_103837_s3/122553542/ccs|SoChr06F|0-9673\t60\t+],\n", " [SoChr06G\t37100031\t37118790\tm84072_230515_100731_s2/193466098/ccs|SoChr06G|0-18757\t60\t+,\n", " SoChr06G\t37102172\t37118789\tm84072_230515_100731_s2/179702372/ccs|SoChr06G|0-16602\t60\t+,\n", " SoChr06G\t37102731\t37118790\tm84072_230515_103837_s3/146867599/ccs|SoChr06G|0-16060\t60\t+,\n", " SoChr06G\t37104691\t37118790\tm84072_230515_103837_s3/137564818/ccs|SoChr06G|0-14118\t60\t+,\n", " SoChr06G\t37106855\t37118782\tm84072_230515_103837_s3/101387147/ccs|SoChr06G|0-11896\t60\t+,\n", " SoChr06G\t37106865\t37118790\tm84072_230515_103837_s3/63243468/ccs|SoChr06G|0-11916\t60\t+,\n", " SoChr06G\t37109368\t37118790\tm64292e_230406_090856/111740633/ccs|SoChr06G|0-9430\t60\t+,\n", " SoChr06G\t37110338\t37118767\tm84072_230515_103837_s3/42273232/ccs|SoChr06G|0-8425\t60\t+,\n", " SoChr06G\t37112947\t37118790\tm84072_230515_103837_s3/12061187/ccs|SoChr06G|0-5842\t60\t+,\n", " SoChr06G\t37113712\t37118790\tm84072_230515_100731_s2/17892452/ccs|SoChr06G|0-5078\t60\t+,\n", " SoChr06G\t37115229\t37118790\tm84072_230515_100731_s2/246879475/ccs|SoChr06G|0-3561\t60\t+,\n", " SoChr06G\t37115594\t37118790\tm84070_230525_081218_s1/115479691/ccs|SoChr06G|0-3197\t60\t+,\n", " SoChr06G\t37116338\t37118790\tm84072_230515_100731_s2/227477991/ccs|SoChr06G|0-2451\t60\t+,\n", " SoChr06G\t37116373\t37118790\tm64292e_230406_090856/18024240/ccs|SoChr06G|0-2414\t60\t+,\n", " SoChr06G\t37116998\t37118790\tm84072_230515_100731_s2/265950028/ccs|SoChr06G|0-1793\t60\t+],\n", " [SoChr07A\t16258188\t16272055\tm84072_230515_100731_s2/32768922/ccs|SoChr07A|0-13876\t60\t+,\n", " SoChr07A\t16259537\t16271804\tm84072_230515_100731_s2/44960614/ccs|SoChr07A|0-12255\t60\t+,\n", " SoChr07A\t16260141\t16271800\tm84072_230515_100731_s2/108793989/ccs|SoChr07A|0-11652\t60\t+,\n", " SoChr07A\t16260482\t16272055\tm84072_230515_103837_s3/163775975/ccs|SoChr07A|0-11591\t60\t+,\n", " SoChr07A\t16261927\t16272055\tm84072_230515_100731_s2/170070890/ccs|SoChr07A|0-10143\t60\t+,\n", " SoChr07A\t16262634\t16272055\tm84072_230515_103837_s3/100729628/ccs|SoChr07A|0-9441\t60\t+,\n", " SoChr07A\t16266227\t16272055\tm84072_230515_100731_s2/155059876/ccs|SoChr07A|0-5844\t60\t+,\n", " SoChr07A\t16267618\t16272055\tm64292e_230406_090856/84609887/ccs|SoChr07A|0-4455\t60\t+,\n", " SoChr07A\t16269449\t16272055\tm84072_230515_100731_s2/150345069/ccs|SoChr07A|0-2623\t60\t+],\n", " [SoChr07D\t10606030\t10612563\tm84072_230515_100731_s2/11930265/ccs|SoChr07D|16503-23035\t60\t+,\n", " SoChr07D\t10606030\t10608727\tm84072_230515_100731_s2/49679641/ccs|SoChr07D|11192-13888\t60\t+,\n", " SoChr07D\t10606030\t10611629\tm84072_230515_100731_s2/82248919/ccs|SoChr07D|14575-20177\t60\t+,\n", " SoChr07D\t10606030\t10614470\tm84072_230515_103837_s3/76943287/ccs|SoChr07D|14215-22653\t60\t+,\n", " SoChr07D\t10606030\t10613402\tm84072_230515_103837_s3/98370997/ccs|SoChr07D|14425-21796\t60\t+,\n", " SoChr07D\t10606031\t10612155\tm84072_230515_103837_s3/112987148/ccs|SoChr07D|13329-19469\t60\t+],\n", " [SoChr07G\t13112378\t13127983\tm84072_230515_100731_s2/11930265/ccs|SoChr07G|0-16503\t60\t+,\n", " SoChr07G\t13114308\t13127983\tm84072_230515_100731_s2/82248919/ccs|SoChr07G|0-14575\t60\t+,\n", " SoChr07G\t13114450\t13127983\tm84072_230515_103837_s3/98370997/ccs|SoChr07G|0-14425\t60\t+,\n", " SoChr07G\t13114671\t13127983\tm84072_230515_103837_s3/76943287/ccs|SoChr07G|0-14215\t60\t+,\n", " SoChr07G\t13115550\t13127984\tm84072_230515_103837_s3/112987148/ccs|SoChr07G|0-13329\t60\t+,\n", " SoChr07G\t13117690\t13127983\tm84072_230515_100731_s2/49679641/ccs|SoChr07G|0-11192\t60\t+],\n", " [SoChr07H\t18394718\t18401441\tm84072_230515_100731_s2/108793989/ccs|SoChr07H|11652-18379\t60\t+,\n", " SoChr07H\t18394718\t18407261\tm84072_230515_100731_s2/44960614/ccs|SoChr07H|12255-24789\t60\t+,\n", " SoChr07H\t18394988\t18412213\tm64292e_230406_090856/84609887/ccs|SoChr07H|4455-21681\t60\t+,\n", " SoChr07H\t18394988\t18405408\tm84072_230515_100731_s2/150345069/ccs|SoChr07H|2623-13045\t60\t+,\n", " SoChr07H\t18394988\t18412017\tm84072_230515_100731_s2/155059876/ccs|SoChr07H|5844-22844\t60\t+,\n", " SoChr07H\t18394988\t18400390\tm84072_230515_100731_s2/170070890/ccs|SoChr07H|10143-15546\t60\t+,\n", " SoChr07H\t18394988\t18408992\tm84072_230515_100731_s2/32768922/ccs|SoChr07H|13876-27870\t60\t+,\n", " SoChr07H\t18394988\t18402223\tm84072_230515_103837_s3/100729628/ccs|SoChr07H|9441-16676\t60\t+,\n", " SoChr07H\t18394988\t18401174\tm84072_230515_103837_s3/163775975/ccs|SoChr07H|11591-17779\t60\t+],\n", " [SoChr08C\t42947827\t42960899\tm84072_230515_100731_s2/194708200/ccs|SoChr08C|10062-23129\t60\t+,\n", " SoChr08C\t42947835\t42957502\tm84072_230515_100731_s2/196083783/ccs|SoChr08C|7896-17556\t60\t+,\n", " SoChr08C\t42947835\t42961207\tm84072_230515_103837_s3/7275961/ccs|SoChr08C|4363-17720\t60\t+,\n", " SoChr08C\t42947836\t42965101\tm84072_230515_103837_s3/95618797/ccs|SoChr08C|9852-27118\t60\t+,\n", " SoChr08C\t42947837\t42952999\tm84072_230515_100731_s2/103548713/ccs|SoChr08C|17300-22454\t60\t+,\n", " SoChr08C\t42947837\t42955372\tm84072_230515_100731_s2/134353576/ccs|SoChr08C|8160-15690\t60\t+,\n", " SoChr08C\t42947837\t42954904\tm84072_230515_103837_s3/63111719/ccs|SoChr08C|8407-15475\t60\t+,\n", " SoChr08C\t42947838\t42952338\tm64292e_230406_090856/74973334/ccs|SoChr08C|20166-24672\t60\t+,\n", " SoChr08C\t42947838\t42963157\tm84072_230515_100731_s2/133300725/ccs|SoChr08C|4800-20113\t60\t+,\n", " SoChr08C\t42947838\t42955187\tm84072_230515_103837_s3/212800579/ccs|SoChr08C|13193-20535\t60\t+,\n", " SoChr08C\t42947838\t42968749\tm84072_230515_103837_s3/232982537/ccs|SoChr08C|11014-31908\t60\t+,\n", " SoChr08C\t42947838\t42957941\tm84072_230515_103837_s3/36832850/ccs|SoChr08C|8036-18135\t60\t+,\n", " SoChr08C\t42947838\t42961976\tm84072_230515_103837_s3/61280915/ccs|SoChr08C|9217-23356\t60\t+,\n", " SoChr08C\t42947838\t42961064\tm84072_230515_103837_s3/66848870/ccs|SoChr08C|11925-25138\t60\t+,\n", " SoChr08C\t42947839\t42960331\tm64292e_230406_090856/153223723/ccs|SoChr08C|6877-19370\t60\t+,\n", " SoChr08C\t42947839\t42954124\tm64292e_230406_090856/162727383/ccs|SoChr08C|6570-12855\t60\t+,\n", " SoChr08C\t42947839\t42954154\tm84070_230525_081218_s1/134616902/ccs|SoChr08C|14262-20581\t60\t+,\n", " SoChr08C\t42947839\t42960911\tm84072_230515_100731_s2/73662567/ccs|SoChr08C|4705-17773\t60\t+,\n", " SoChr08C\t42947840\t42971140\tm84072_230515_100731_s2/208471359/ccs|SoChr08C|4036-27349\t60\t+,\n", " SoChr08C\t42947841\t42956641\tm84072_230515_100731_s2/148704893/ccs|SoChr08C|13243-22147\t60\t+],\n", " [SoChr08E\t47824969\t47845109\tm64292e_230406_090856/74973334/ccs|SoChr08E|0-20166\t60\t+,\n", " SoChr08E\t47827813\t47845108\tm84072_230515_100731_s2/103548713/ccs|SoChr08E|0-17300\t60\t+,\n", " SoChr08E\t47830857\t47845110\tm84070_230525_081218_s1/134616902/ccs|SoChr08E|0-14262\t60\t+,\n", " SoChr08E\t47831845\t47845112\tm84072_230515_100731_s2/148704893/ccs|SoChr08E|0-13243\t60\t+,\n", " SoChr08E\t47831914\t47845109\tm84072_230515_103837_s3/212800579/ccs|SoChr08E|0-13193\t60\t+,\n", " SoChr08E\t47833178\t47845109\tm84072_230515_103837_s3/66848870/ccs|SoChr08E|0-11925\t60\t+,\n", " SoChr08E\t47834073\t47845109\tm84072_230515_103837_s3/232982537/ccs|SoChr08E|0-11014\t60\t+,\n", " SoChr08E\t47835033\t47845098\tm84072_230515_100731_s2/194708200/ccs|SoChr08E|0-10062\t60\t+,\n", " SoChr08E\t47835258\t47845107\tm84072_230515_103837_s3/95618797/ccs|SoChr08E|0-9852\t60\t+,\n", " SoChr08E\t47835896\t47845109\tm84072_230515_103837_s3/61280915/ccs|SoChr08E|0-9217\t60\t+,\n", " SoChr08E\t47836697\t47845108\tm84072_230515_103837_s3/63111719/ccs|SoChr08E|0-8407\t60\t+,\n", " SoChr08E\t47836950\t47845108\tm84072_230515_100731_s2/134353576/ccs|SoChr08E|0-8160\t60\t+,\n", " SoChr08E\t47837076\t47845109\tm84072_230515_103837_s3/36832850/ccs|SoChr08E|0-8036\t60\t+,\n", " SoChr08E\t47837212\t47845106\tm84072_230515_100731_s2/196083783/ccs|SoChr08E|0-7896\t60\t+,\n", " SoChr08E\t47838229\t47845110\tm64292e_230406_090856/153223723/ccs|SoChr08E|0-6877\t60\t+,\n", " SoChr08E\t47838544\t47845110\tm64292e_230406_090856/162727383/ccs|SoChr08E|0-6570\t60\t+,\n", " SoChr08E\t47840311\t47845109\tm84072_230515_100731_s2/133300725/ccs|SoChr08E|0-4800\t60\t+,\n", " SoChr08E\t47840407\t47845110\tm84072_230515_100731_s2/73662567/ccs|SoChr08E|0-4705\t60\t+,\n", " SoChr08E\t47840748\t47845106\tm84072_230515_103837_s3/7275961/ccs|SoChr08E|0-4363\t60\t+,\n", " SoChr08E\t47841087\t47845111\tm84072_230515_100731_s2/208471359/ccs|SoChr08E|0-4036\t60\t+],\n", " [SoChr08F\t41728490\t41742603\tm84072_230515_100731_s2/239603927/ccs|SoChr08F|4730-18833\t60\t+,\n", " SoChr08F\t41728549\t41739175\tm84072_230515_100731_s2/183109210/ccs|SoChr08F|15801-26410\t60\t+,\n", " SoChr08F\t41728693\t41744700\tm84072_230515_100731_s2/164696068/ccs|SoChr08F|8955-24954\t60\t+,\n", " SoChr08F\t41728693\t41739288\tm84072_230515_100731_s2/261098847/ccs|SoChr08F|4355-14943\t60\t+,\n", " SoChr08F\t41728693\t41743042\tm84072_230515_100731_s2/50270038/ccs|SoChr08F|3826-18169\t60\t+,\n", " SoChr08F\t41728693\t41738223\tm84072_230515_103837_s3/134220171/ccs|SoChr08F|10425-19960\t60\t+,\n", " SoChr08F\t41728693\t41740875\tm84072_230515_103837_s3/158794542/ccs|SoChr08F|9483-21647\t60\t+,\n", " SoChr08F\t41728693\t41739920\tm84072_230515_103837_s3/161877526/ccs|SoChr08F|12196-23429\t60\t+,\n", " SoChr08F\t41728693\t41743340\tm84072_230515_103837_s3/188551425/ccs|SoChr08F|4117-18760\t60\t+,\n", " SoChr08F\t41728703\t41743191\tm64292e_230406_090856/36046282/ccs|SoChr08F|7322-22003\t60\t+],\n", " [SoChr08G\t42405832\t42414505\tm84072_230515_100731_s2/164696068/ccs|SoChr08G|0-8955\t60\t+,\n", " SoChr08G\t42405832\t42414361\tm84072_230515_100731_s2/183109210/ccs|SoChr08G|0-15801\t60\t+,\n", " SoChr08G\t42405832\t42414505\tm84072_230515_103837_s3/134220171/ccs|SoChr08G|0-10425\t60\t+,\n", " SoChr08G\t42405832\t42414505\tm84072_230515_103837_s3/158794542/ccs|SoChr08G|0-9483\t60\t+,\n", " SoChr08G\t42405832\t42414505\tm84072_230515_103837_s3/161877526/ccs|SoChr08G|0-12196\t60\t+,\n", " SoChr08G\t42407282\t42414515\tm64292e_230406_090856/36046282/ccs|SoChr08G|0-7322\t60\t+,\n", " SoChr08G\t42409577\t42414301\tm84072_230515_100731_s2/239603927/ccs|SoChr08G|0-4730\t60\t+,\n", " SoChr08G\t42410146\t42414505\tm84072_230515_100731_s2/261098847/ccs|SoChr08G|0-4355\t60\t+,\n", " SoChr08G\t42410388\t42414505\tm84072_230515_103837_s3/188551425/ccs|SoChr08G|0-4117\t60\t+,\n", " SoChr08G\t42410676\t42414505\tm84072_230515_100731_s2/50270038/ccs|SoChr08G|0-3826\t60\t+],\n", " [SoChr09A\t12673934\t12679064\tm84072_230515_100731_s2/141824304/ccs|SoChr09A|19431-24569\t60\t+,\n", " SoChr09A\t12674331\t12676623\tm84072_230515_103837_s3/146609416/ccs|SoChr09A|20381-22676\t60\t+,\n", " SoChr09A\t12674332\t12677010\tm84072_230515_100731_s2/232328424/ccs|SoChr09A|23015-25696\t60\t+],\n", " [SoChr09C\t8247122\t8268425\tm84072_230515_103837_s3/9047054/ccs|SoChr09C|0-21329\t60\t+,\n", " SoChr09C\t8251128\t8268425\tm84072_230515_100731_s2/215159984/ccs|SoChr09C|0-17289\t60\t+,\n", " SoChr09C\t8251210\t8268422\tm84070_230525_081218_s1/37164716/ccs|SoChr09C|0-17228\t60\t+,\n", " SoChr09C\t8253173\t8268425\tm84072_230515_100731_s2/52368053/ccs|SoChr09C|0-15251\t60\t+,\n", " SoChr09C\t8256926\t8268425\tm84072_230515_103837_s3/225777551/ccs|SoChr09C|0-11497\t60\t+,\n", " SoChr09C\t8258139\t8268426\tm64292e_230406_090856/60230321/ccs|SoChr09C|0-10296\t60\t+,\n", " SoChr09C\t8258852\t8268425\tm84072_230515_100731_s2/262275547/ccs|SoChr09C|0-9569\t60\t+,\n", " SoChr09C\t8259377\t8268425\tm84072_230515_100731_s2/223024348/ccs|SoChr09C|0-9040\t60\t+,\n", " SoChr09C\t8259599\t8268425\tm84072_230515_100731_s2/251858609/ccs|SoChr09C|0-8822\t60\t+,\n", " SoChr09C\t8260084\t8268425\tm84072_230515_100731_s2/23266495/ccs|SoChr09C|0-8338\t60\t+,\n", " SoChr09C\t8260125\t8268425\tm84072_230515_100731_s2/221054280/ccs|SoChr09C|0-8298\t60\t+,\n", " SoChr09C\t8260943\t8268425\tm84072_230515_103837_s3/1704677/ccs|SoChr09C|0-7482\t60\t+,\n", " SoChr09C\t8261780\t8268168\tm84072_230515_103837_s3/22544989/ccs|SoChr09C|0-6387\t60\t+,\n", " SoChr09C\t8262412\t8268425\tm84072_230515_103837_s3/248647621/ccs|SoChr09C|0-6015\t60\t+,\n", " SoChr09C\t8264095\t8268426\tm84072_230515_103837_s3/76222168/ccs|SoChr09C|0-4333\t60\t+,\n", " SoChr09C\t8264148\t8268425\tm84072_230515_103837_s3/182065045/ccs|SoChr09C|0-4278\t60\t+,\n", " SoChr09C\t8264255\t8268426\tm84072_230515_103837_s3/113970986/ccs|SoChr09C|0-4175\t60\t+,\n", " SoChr09C\t8265061\t8268425\tm84072_230515_100731_s2/210502000/ccs|SoChr09C|0-3363\t60\t+,\n", " SoChr09C\t8266395\t8268425\tm84072_230515_100731_s2/68160462/ccs|SoChr09C|0-2030\t60\t+],\n", " [SoChr09C\t62527690\t62529704\tm84070_230525_081218_s1/174788010/ccs|SoChr09C|20345-22364\t0\t+,\n", " SoChr09C\t62527690\t62533953\tm84072_230515_103837_s3/142872618/ccs|SoChr09C|12642-18904\t0\t+,\n", " SoChr09C\t62527820\t62530719\tm84072_230515_103837_s3/171184097/ccs|SoChr09C|23974-26871\t0\t+,\n", " SoChr09C\t62527824\t62529538\tm64292e_230406_090856/13500459/ccs|SoChr09C|20712-22429\t0\t+,\n", " SoChr09C\t62527824\t62530351\tm64292e_230406_090856/160041015/ccs|SoChr09C|9578-12103\t0\t+,\n", " SoChr09C\t62527824\t62533895\tm84070_230525_081218_s1/34079772/ccs|SoChr09C|15301-21376\t0\t+,\n", " SoChr09C\t62527824\t62529157\tm84072_230515_100731_s2/14025590/ccs|SoChr09C|21499-22831\t0\t+,\n", " SoChr09C\t62527824\t62536327\tm84072_230515_100731_s2/46270716/ccs|SoChr09C|15506-24008\t0\t+,\n", " SoChr09C\t62527824\t62528888\tm84072_230515_100731_s2/63834541/ccs|SoChr09C|15450-16516\t0\t+,\n", " SoChr09C\t62527824\t62528900\tm84072_230515_103837_s3/125242654/ccs|SoChr09C|17342-18421\t0\t+,\n", " SoChr09C\t62527824\t62529208\tm84072_230515_103837_s3/250611133/ccs|SoChr09C|16692-18077\t0\t+,\n", " SoChr09C\t62527825\t62533273\tm64292e_230406_090856/96601282/ccs|SoChr09C|14028-19477\t0\t+,\n", " SoChr09C\t62527825\t62529489\tm84072_230515_100731_s2/40960708/ccs|SoChr09C|14574-16240\t0\t+,\n", " SoChr09C\t62527837\t62537082\tm84072_230515_100731_s2/66522845/ccs|SoChr09C|20924-30163\t0\t+,\n", " SoChr09C\t62527839\t62532706\tm84072_230515_100731_s2/135009759/ccs|SoChr09C|15592-20463\t0\t+],\n", " [SoChr09C\t65686948\t65691158\tm84072_230515_100731_s2/128976106/ccs|SoChr09C|14454-18677\t0\t+,\n", " SoChr09C\t65686948\t65688003\tm84072_230515_103837_s3/163777482/ccs|SoChr09C|16452-17508\t0\t+,\n", " SoChr09C\t65686949\t65691739\tm84072_230515_103837_s3/19596448/ccs|SoChr09C|10586-15377\t0\t+],\n", " [SoChr09D\t11594101\t11608197\tm84072_230515_100731_s2/7080727/ccs|SoChr09D|3054-17106\t60\t+,\n", " SoChr09D\t11594218\t11610777\tm84072_230515_103837_s3/102504269/ccs|SoChr09D|6277-22843\t60\t+,\n", " SoChr09D\t11594232\t11606530\tm84072_230515_100731_s2/3412255/ccs|SoChr09D|10109-22404\t60\t+,\n", " SoChr09D\t11594244\t11606081\tm64292e_230406_090856/36111987/ccs|SoChr09D|2671-14588\t60\t+,\n", " SoChr09D\t11594246\t11606018\tm84072_230515_100731_s2/178263690/ccs|SoChr09D|8746-20519\t60\t+,\n", " SoChr09D\t11594722\t11612393\tm84072_230515_100731_s2/169677754/ccs|SoChr09D|3531-21203\t60\t+,\n", " SoChr09D\t11594723\t11601602\tm84072_230515_100731_s2/178720656/ccs|SoChr09D|7609-14488\t60\t+,\n", " SoChr09D\t11594723\t11608063\tm84072_230515_100731_s2/201070331/ccs|SoChr09D|13720-27057\t60\t+,\n", " SoChr09D\t11594723\t11616664\tm84072_230515_100731_s2/22810236/ccs|SoChr09D|7533-29465\t60\t+,\n", " SoChr09D\t11594723\t11611027\tm84072_230515_100731_s2/41620655/ccs|SoChr09D|6317-22620\t60\t+,\n", " SoChr09D\t11594723\t11616197\tm84072_230515_103837_s3/106759133/ccs|SoChr09D|4557-26034\t60\t+,\n", " SoChr09D\t11594723\t11606812\tm84072_230515_103837_s3/25822883/ccs|SoChr09D|3571-15660\t60\t+,\n", " SoChr09D\t11594723\t11600460\tm84072_230515_103837_s3/261624414/ccs|SoChr09D|9806-15540\t60\t+,\n", " SoChr09D\t11594723\t11601801\tm84072_230515_103837_s3/7605745/ccs|SoChr09D|12190-19264\t60\t+,\n", " SoChr09D\t11594725\t11614676\tm64292e_230406_090856/123928906/ccs|SoChr09D|2305-22242\t60\t+,\n", " SoChr09D\t11594725\t11608499\tm84072_230515_100731_s2/125703403/ccs|SoChr09D|12309-26075\t60\t+],\n", " [SoChr09D\t11616157\t11639177\tm84072_230515_100731_s2/232328424/ccs|SoChr09D|0-23015\t60\t+,\n", " SoChr09D\t11618804\t11639176\tm84072_230515_103837_s3/146609416/ccs|SoChr09D|0-20381\t60\t+,\n", " SoChr09D\t11619338\t11638777\tm84072_230515_100731_s2/141824304/ccs|SoChr09D|0-19431\t60\t+],\n", " [SoChr09F\t11670264\t11688041\tm84072_230515_103837_s3/213718016/ccs|SoChr09F|0-10685\t51\t+,\n", " SoChr09F\t11670546\t11688046\tm64292e_230406_090856/6818217/ccs|SoChr09F|0-10555\t44\t+,\n", " SoChr09F\t11673449\t11688046\tm84072_230515_103837_s3/148966399/ccs|SoChr09F|0-7407\t60\t+,\n", " SoChr09F\t11673449\t11688046\tm84072_230515_103837_s3/169154172/ccs|SoChr09F|0-7185\t53\t+,\n", " SoChr09F\t11673449\t11688046\tm84072_230515_103837_s3/71046276/ccs|SoChr09F|0-7400\t52\t+,\n", " SoChr09F\t11678846\t11688046\tm84072_230515_100731_s2/132519499/ccs|SoChr09F|0-6462\t60\t+,\n", " SoChr09F\t11678846\t11688011\tm84072_230515_103837_s3/184421132/ccs|SoChr09F|0-6296\t60\t+,\n", " SoChr09F\t11679045\t11688046\tm84072_230515_103837_s3/37031362/ccs|SoChr09F|0-5891\t60\t+,\n", " SoChr09F\t11679757\t11688046\tm84072_230515_100731_s2/85723204/ccs|SoChr09F|0-5199\t60\t+,\n", " SoChr09F\t11679922\t11688046\tm84072_230515_103837_s3/212664773/ccs|SoChr09F|0-5062\t60\t+],\n", " [SoChr09F\t13461465\t13475179\tm84072_230515_100731_s2/201070331/ccs|SoChr09F|0-13720\t60\t+,\n", " SoChr09F\t13462847\t13475179\tm84072_230515_100731_s2/125703403/ccs|SoChr09F|0-12309\t60\t+,\n", " SoChr09F\t13462998\t13475179\tm84072_230515_103837_s3/7605745/ccs|SoChr09F|0-12190\t60\t+,\n", " SoChr09F\t13464601\t13474698\tm84072_230515_100731_s2/3412255/ccs|SoChr09F|0-10109\t60\t+,\n", " SoChr09F\t13465383\t13475179\tm84072_230515_103837_s3/261624414/ccs|SoChr09F|0-9806\t60\t+,\n", " SoChr09F\t13465966\t13474712\tm84072_230515_100731_s2/178263690/ccs|SoChr09F|0-8746\t60\t+,\n", " SoChr09F\t13467585\t13475179\tm84072_230515_100731_s2/178720656/ccs|SoChr09F|0-7609\t60\t+,\n", " SoChr09F\t13467646\t13475188\tm84072_230515_100731_s2/22810236/ccs|SoChr09F|0-7533\t60\t+,\n", " SoChr09F\t13468415\t13474684\tm84072_230515_103837_s3/102504269/ccs|SoChr09F|0-6277\t60\t+,\n", " SoChr09F\t13468875\t13475179\tm84072_230515_100731_s2/41620655/ccs|SoChr09F|0-6317\t60\t+,\n", " SoChr09F\t13470632\t13475179\tm84072_230515_103837_s3/106759133/ccs|SoChr09F|0-4557\t60\t+,\n", " SoChr09F\t13471510\t13474565\tm84072_230515_100731_s2/7080727/ccs|SoChr09F|0-3054\t60\t+,\n", " SoChr09F\t13471619\t13475179\tm84072_230515_103837_s3/25822883/ccs|SoChr09F|0-3571\t60\t+,\n", " SoChr09F\t13471657\t13475179\tm84072_230515_100731_s2/169677754/ccs|SoChr09F|0-3531\t60\t+,\n", " SoChr09F\t13472045\t13474710\tm64292e_230406_090856/36111987/ccs|SoChr09F|0-2671\t60\t+,\n", " SoChr09F\t13472886\t13475179\tm64292e_230406_090856/123928906/ccs|SoChr09F|0-2305\t60\t+],\n", " [SoChr09G\t10145361\t10157038\tm84072_230515_103837_s3/184421132/ccs|SoChr09G|6296-18879\t60\t+,\n", " SoChr09G\t10145390\t10159802\tm84072_230515_103837_s3/213718016/ccs|SoChr09G|10685-25984\t60\t+,\n", " SoChr09G\t10145480\t10156138\tm84072_230515_103837_s3/37031362/ccs|SoChr09G|5891-17438\t60\t+,\n", " SoChr09G\t10145494\t10153544\tm84072_230515_103837_s3/148966399/ccs|SoChr09G|7407-16353\t60\t+,\n", " SoChr09G\t10145495\t10158844\tm84072_230515_100731_s2/132519499/ccs|SoChr09G|6462-20710\t60\t+,\n", " SoChr09G\t10145495\t10154478\tm84072_230515_100731_s2/85723204/ccs|SoChr09G|5199-15079\t60\t+,\n", " SoChr09G\t10145495\t10154398\tm84072_230515_103837_s3/169154172/ccs|SoChr09G|7185-16990\t60\t+,\n", " SoChr09G\t10145495\t10156354\tm84072_230515_103837_s3/71046276/ccs|SoChr09G|7400-19159\t60\t+,\n", " SoChr09G\t10145526\t10155477\tm64292e_230406_090856/6818217/ccs|SoChr09G|10555-21403\t60\t+,\n", " SoChr09G\t10145527\t10166683\tm84072_230515_103837_s3/212664773/ccs|SoChr09G|5062-27125\t60\t+,\n", " SoChr09G\t10147551\t10161807\tm84072_230515_100731_s2/140579424/ccs|SoChr09G|19072-34808\t60\t+,\n", " SoChr09G\t10147551\t10154226\tm84072_230515_100731_s2/29294802/ccs|SoChr09G|17025-25178\t60\t+],\n", " [SoChr09H\t9650899\t9666872\tm84072_230515_103837_s3/22544989/ccs|SoChr09H|6387-22355\t60\t+,\n", " SoChr09H\t9651153\t9667320\tm84070_230525_081218_s1/37164716/ccs|SoChr09H|17228-33399\t60\t+,\n", " SoChr09H\t9651156\t9667625\tm84072_230515_100731_s2/210502000/ccs|SoChr09H|3363-19824\t60\t+,\n", " SoChr09H\t9651156\t9654259\tm84072_230515_100731_s2/215159984/ccs|SoChr09H|17289-20389\t60\t+,\n", " SoChr09H\t9651156\t9661209\tm84072_230515_100731_s2/221054280/ccs|SoChr09H|8298-18354\t60\t+,\n", " SoChr09H\t9651156\t9664095\tm84072_230515_100731_s2/223024348/ccs|SoChr09H|9040-21965\t60\t+,\n", " SoChr09H\t9651156\t9659862\tm84072_230515_100731_s2/23266495/ccs|SoChr09H|8338-17040\t60\t+,\n", " SoChr09H\t9651156\t9663210\tm84072_230515_100731_s2/251858609/ccs|SoChr09H|8822-20873\t60\t+,\n", " SoChr09H\t9651156\t9657685\tm84072_230515_100731_s2/262275547/ccs|SoChr09H|9569-16089\t60\t+,\n", " SoChr09H\t9651156\t9655559\tm84072_230515_100731_s2/52368053/ccs|SoChr09H|15251-19650\t60\t+,\n", " SoChr09H\t9651156\t9662818\tm84072_230515_100731_s2/68160462/ccs|SoChr09H|2030-13688\t60\t+,\n", " SoChr09H\t9651156\t9662718\tm84072_230515_103837_s3/1704677/ccs|SoChr09H|7482-19038\t60\t+,\n", " SoChr09H\t9651156\t9664593\tm84072_230515_103837_s3/182065045/ccs|SoChr09H|4278-17712\t60\t+,\n", " SoChr09H\t9651156\t9660873\tm84072_230515_103837_s3/225777551/ccs|SoChr09H|11497-21212\t60\t+,\n", " SoChr09H\t9651156\t9664198\tm84072_230515_103837_s3/248647621/ccs|SoChr09H|6015-19057\t60\t+,\n", " SoChr09H\t9651156\t9662758\tm84072_230515_103837_s3/9047054/ccs|SoChr09H|21329-32917\t60\t+,\n", " SoChr09H\t9651157\t9652408\tm64292e_230406_090856/60230321/ccs|SoChr09H|10296-11542\t60\t+,\n", " SoChr09H\t9651157\t9662806\tm84072_230515_103837_s3/113970986/ccs|SoChr09H|4175-15825\t60\t+,\n", " SoChr09H\t9651161\t9670125\tm84072_230515_103837_s3/76222168/ccs|SoChr09H|4333-23311\t60\t+],\n", " [SoChr09H\t60741563\t60765541\tm84072_230515_103837_s3/171184097/ccs|SoChr09H|0-23974\t60\t+,\n", " SoChr09H\t60744045\t60765545\tm84072_230515_100731_s2/14025590/ccs|SoChr09H|0-21499\t60\t+,\n", " SoChr09H\t60744623\t60765558\tm84072_230515_100731_s2/66522845/ccs|SoChr09H|0-20924\t60\t+,\n", " SoChr09H\t60744846\t60765545\tm64292e_230406_090856/13500459/ccs|SoChr09H|0-20712\t60\t+,\n", " SoChr09H\t60745078\t60765411\tm84070_230525_081218_s1/174788010/ccs|SoChr09H|0-20345\t60\t+,\n", " SoChr09H\t60748206\t60765545\tm84072_230515_103837_s3/125242654/ccs|SoChr09H|0-17342\t60\t+,\n", " SoChr09H\t60748854\t60765545\tm84072_230515_103837_s3/250611133/ccs|SoChr09H|0-16692\t60\t+,\n", " SoChr09H\t60749078\t60765545\tm84072_230515_103837_s3/163777482/ccs|SoChr09H|0-16452\t60\t+,\n", " SoChr09H\t60749958\t60765560\tm84072_230515_100731_s2/135009759/ccs|SoChr09H|0-15592\t60\t+,\n", " SoChr09H\t60750041\t60765545\tm84072_230515_100731_s2/46270716/ccs|SoChr09H|0-15506\t60\t+,\n", " SoChr09H\t60750096\t60765545\tm84072_230515_100731_s2/63834541/ccs|SoChr09H|0-15450\t60\t+,\n", " SoChr09H\t60750248\t60765545\tm84070_230525_081218_s1/34079772/ccs|SoChr09H|0-15301\t60\t+,\n", " SoChr09H\t60750970\t60765546\tm84072_230515_100731_s2/40960708/ccs|SoChr09H|0-14574\t60\t+,\n", " SoChr09H\t60751100\t60765545\tm84072_230515_100731_s2/128976106/ccs|SoChr09H|0-14454\t60\t+,\n", " SoChr09H\t60751515\t60765546\tm64292e_230406_090856/96601282/ccs|SoChr09H|0-14028\t60\t+,\n", " SoChr09H\t60752767\t60765411\tm84072_230515_103837_s3/142872618/ccs|SoChr09H|0-12642\t60\t+,\n", " SoChr09H\t60754958\t60765546\tm84072_230515_103837_s3/19596448/ccs|SoChr09H|0-10586\t60\t+,\n", " SoChr09H\t60755963\t60765545\tm64292e_230406_090856/160041015/ccs|SoChr09H|0-9578\t60\t+],\n", " [SoChr10A\t23992801\t24001492\tm84070_230525_081218_s1/133431830/ccs|SoChr10A|6518-19144\t60\t+,\n", " SoChr10A\t23992801\t24004443\tm84070_230525_081218_s1/250746629/ccs|SoChr10A|13042-28622\t60\t+,\n", " SoChr10A\t23992801\t24005981\tm84072_230515_103837_s3/139003364/ccs|SoChr10A|11238-28348\t60\t+,\n", " SoChr10A\t23992801\t24013585\tm84072_230515_103837_s3/182914637/ccs|SoChr10A|11615-36335\t60\t+,\n", " SoChr10A\t23992801\t24005991\tm84072_230515_103837_s3/246681775/ccs|SoChr10A|8789-25921\t60\t+,\n", " SoChr10A\t23992801\t24004480\tm84072_230515_103837_s3/79695641/ccs|SoChr10A|13309-28963\t60\t+,\n", " SoChr10A\t23992801\t24018410\tm84072_230515_103837_s3/8062994/ccs|SoChr10A|14282-43840\t60\t+],\n", " [SoChr10A\t39768301\t39775046\tm64292e_230406_090856/131139055/ccs|SoChr10A|5873-12618\t60\t+,\n", " SoChr10A\t39768936\t39778004\tm84070_230525_081218_s1/136582369/ccs|SoChr10A|15332-24405\t60\t+,\n", " SoChr10A\t39768936\t39786697\tm84070_230525_081218_s1/73535371/ccs|SoChr10A|8169-25937\t60\t+,\n", " SoChr10A\t39768936\t39796550\tm84072_230515_100731_s2/118099806/ccs|SoChr10A|5791-33397\t60\t+,\n", " SoChr10A\t39768936\t39793369\tm84072_230515_100731_s2/9896236/ccs|SoChr10A|10662-35087\t60\t+,\n", " SoChr10A\t39768936\t39781395\tm84072_230515_103837_s3/119996818/ccs|SoChr10A|8101-20559\t60\t+,\n", " SoChr10A\t39768936\t39786708\tm84072_230515_103837_s3/129437658/ccs|SoChr10A|6402-24171\t60\t+,\n", " SoChr10A\t39768936\t39775610\tm84072_230515_103837_s3/157290317/ccs|SoChr10A|8011-14687\t60\t+,\n", " SoChr10A\t39768936\t39784350\tm84072_230515_103837_s3/178718802/ccs|SoChr10A|5145-20559\t60\t+,\n", " SoChr10A\t39768936\t39779683\tm84072_230515_103837_s3/77926381/ccs|SoChr10A|6359-17133\t60\t+,\n", " SoChr10A\t39768936\t39777918\tm84072_230515_103837_s3/94508383/ccs|SoChr10A|12436-21418\t60\t+,\n", " SoChr10A\t39768937\t39793016\tm84072_230515_100731_s2/91297631/ccs|SoChr10A|2434-26496\t60\t+,\n", " SoChr10A\t39768937\t39779922\tm84072_230515_103837_s3/13046360/ccs|SoChr10A|10572-21555\t60\t+,\n", " SoChr10A\t39769020\t39774949\tm84072_230515_100731_s2/192152661/ccs|SoChr10A|12564-18488\t60\t+],\n", " [SoChr10B\t27992429\t28009368\tm84072_230515_103837_s3/62264476/ccs|SoChr10B|0-17810\t60\t+,\n", " SoChr10B\t27993178\t28009368\tm64292e_230406_090856/125242040/ccs|SoChr10B|0-17062\t60\t+,\n", " SoChr10B\t27993959\t28009363\tm84072_230515_103837_s3/1835499/ccs|SoChr10B|0-16272\t60\t+,\n", " SoChr10B\t27994899\t28009368\tm84072_230515_100731_s2/77661706/ccs|SoChr10B|0-15273\t60\t+,\n", " SoChr10B\t27995751\t28009368\tm64292e_230406_090856/100860405/ccs|SoChr10B|0-14470\t60\t+,\n", " SoChr10B\t27995948\t28009368\tm84072_230515_103837_s3/8062994/ccs|SoChr10B|0-14282\t60\t+,\n", " SoChr10B\t27996968\t28009368\tm84072_230515_103837_s3/79695641/ccs|SoChr10B|0-13309\t60\t+,\n", " SoChr10B\t27997195\t28009368\tm84070_230525_081218_s1/250746629/ccs|SoChr10B|0-13042\t60\t+,\n", " SoChr10B\t27998617\t28009368\tm84072_230515_103837_s3/182914637/ccs|SoChr10B|0-11615\t60\t+,\n", " SoChr10B\t27998937\t28009368\tm84072_230515_100731_s2/122492040/ccs|SoChr10B|0-11287\t60\t+,\n", " SoChr10B\t27998988\t28009368\tm84072_230515_103837_s3/139003364/ccs|SoChr10B|0-11238\t60\t+,\n", " SoChr10B\t28001441\t28009368\tm84072_230515_103837_s3/246681775/ccs|SoChr10B|0-8789\t60\t+,\n", " SoChr10B\t28001519\t28009368\tm84072_230515_103837_s3/192219232/ccs|SoChr10B|0-8706\t60\t+,\n", " SoChr10B\t28002424\t28009368\tm84072_230515_100731_s2/116001500/ccs|SoChr10B|0-7801\t60\t+,\n", " SoChr10B\t28003052\t28009368\tm84072_230515_100731_s2/71307228/ccs|SoChr10B|0-7172\t11\t+],\n", " [SoChr10B\t43415833\t43431131\tm84070_230525_081218_s1/136582369/ccs|SoChr10B|0-15332\t60\t+,\n", " SoChr10B\t43418636\t43431215\tm84072_230515_100731_s2/192152661/ccs|SoChr10B|0-12564\t60\t+,\n", " SoChr10B\t43418695\t43431131\tm84072_230515_103837_s3/94508383/ccs|SoChr10B|0-12436\t60\t+,\n", " SoChr10B\t43420466\t43431131\tm84072_230515_100731_s2/9896236/ccs|SoChr10B|0-10662\t60\t+,\n", " SoChr10B\t43420562\t43431132\tm84072_230515_103837_s3/13046360/ccs|SoChr10B|0-10572\t60\t+,\n", " SoChr10B\t43422968\t43431131\tm84070_230525_081218_s1/73535371/ccs|SoChr10B|0-8169\t60\t+,\n", " SoChr10B\t43423030\t43431131\tm84072_230515_103837_s3/119996818/ccs|SoChr10B|0-8101\t60\t+,\n", " SoChr10B\t43423116\t43431131\tm84072_230515_103837_s3/157290317/ccs|SoChr10B|0-8011\t60\t+,\n", " SoChr10B\t43424624\t43430496\tm64292e_230406_090856/131139055/ccs|SoChr10B|0-5873\t60\t+,\n", " SoChr10B\t43424732\t43431131\tm84072_230515_103837_s3/129437658/ccs|SoChr10B|0-6402\t60\t+,\n", " SoChr10B\t43424803\t43431131\tm84072_230515_103837_s3/77926381/ccs|SoChr10B|0-6359\t60\t+,\n", " SoChr10B\t43425339\t43431131\tm84072_230515_100731_s2/118099806/ccs|SoChr10B|0-5791\t60\t+,\n", " SoChr10B\t43425986\t43431131\tm84072_230515_103837_s3/178718802/ccs|SoChr10B|0-5145\t60\t+,\n", " SoChr10B\t43428698\t43431132\tm84072_230515_100731_s2/91297631/ccs|SoChr10B|0-2434\t60\t+],\n", " [SoChr10C\t47356602\t47369329\tm84072_230515_103837_s3/13570902/ccs|SoChr10C|0-12734\t60\t+,\n", " SoChr10C\t47359454\t47369330\tm84072_230515_100731_s2/193074387/ccs|SoChr10C|0-9861\t60\t+,\n", " SoChr10C\t47359558\t47369330\tm84072_230515_103837_s3/227869933/ccs|SoChr10C|0-9758\t60\t+,\n", " SoChr10C\t47359957\t47369330\tm84072_230515_100731_s2/122224992/ccs|SoChr10C|0-9373\t60\t+,\n", " SoChr10C\t47361052\t47369330\tm84072_230515_103837_s3/250874195/ccs|SoChr10C|0-8279\t60\t+,\n", " SoChr10C\t47361890\t47369330\tm84072_230515_103837_s3/152439659/ccs|SoChr10C|0-7441\t60\t+,\n", " SoChr10C\t47361900\t47369330\tm84072_230515_100731_s2/69998352/ccs|SoChr10C|0-7428\t60\t+,\n", " SoChr10C\t47363144\t47369330\tm84072_230515_103837_s3/135924982/ccs|SoChr10C|0-6194\t60\t+,\n", " SoChr10C\t47364142\t47369330\tm84070_230525_081218_s1/55906740/ccs|SoChr10C|0-5207\t60\t+,\n", " SoChr10C\t47364378\t47369330\tm84072_230515_100731_s2/112331425/ccs|SoChr10C|0-4952\t60\t+,\n", " SoChr10C\t47364626\t47369330\tm84072_230515_103837_s3/109576925/ccs|SoChr10C|0-4703\t60\t+],\n", " [SoChr10D\t26873310\t26884760\tm84072_230515_100731_s2/128386700/ccs|SoChr10D|7012-18463\t60\t+,\n", " SoChr10D\t26873384\t26881968\tm84072_230515_103837_s3/166333427/ccs|SoChr10D|5152-13735\t60\t+,\n", " SoChr10D\t26873384\t26889456\tm84072_230515_103837_s3/43843789/ccs|SoChr10D|2715-18787\t60\t+,\n", " SoChr10D\t26873388\t26879495\tm84072_230515_103837_s3/128058286/ccs|SoChr10D|11065-17175\t60\t+,\n", " SoChr10D\t26873544\t26876486\tm84072_230515_100731_s2/159124429/ccs|SoChr10D|15226-18162\t60\t+,\n", " SoChr10D\t26873545\t26880383\tm64292e_230406_090856/140706502/ccs|SoChr10D|8781-15618\t60\t+,\n", " SoChr10D\t26873545\t26877382\tm84072_230515_100731_s2/117574760/ccs|SoChr10D|10046-13881\t60\t+,\n", " SoChr10D\t26873545\t26883501\tm84072_230515_100731_s2/122422966/ccs|SoChr10D|9209-19162\t60\t+,\n", " SoChr10D\t26873545\t26894677\tm84072_230515_103837_s3/242159245/ccs|SoChr10D|9934-31078\t60\t+,\n", " SoChr10D\t26873545\t26899058\tm84072_230515_103837_s3/245371777/ccs|SoChr10D|5380-30887\t60\t+,\n", " SoChr10D\t26873545\t26895352\tm84072_230515_103837_s3/48300450/ccs|SoChr10D|2858-24662\t60\t+,\n", " SoChr10D\t26873546\t26898570\tm84072_230515_100731_s2/194707548/ccs|SoChr10D|6355-31353\t60\t+,\n", " SoChr10D\t26873546\t26889423\tm84072_230515_100731_s2/252906447/ccs|SoChr10D|5481-21327\t60\t+,\n", " SoChr10D\t26873546\t26894135\tm84072_230515_100731_s2/32115867/ccs|SoChr10D|11366-31954\t60\t+,\n", " SoChr10D\t26873547\t26883370\tm64292e_230406_090856/67569745/ccs|SoChr10D|3466-13363\t60\t+],\n", " [SoChr10E\t26570876\t26580599\tm84072_230515_100731_s2/195891711/ccs|SoChr10E|0-9722\t60\t+,\n", " SoChr10E\t26571333\t26582078\tm84072_230515_103837_s3/163779070/ccs|SoChr10E|0-10748\t60\t+,\n", " SoChr10E\t26572306\t26582076\tm64292e_230406_090856/108857878/ccs|SoChr10E|0-9768\t60\t+,\n", " SoChr10E\t26572438\t26582078\tm84072_230515_100731_s2/87032928/ccs|SoChr10E|0-9632\t60\t+,\n", " SoChr10E\t26574435\t26582077\tm84072_230515_100731_s2/125046372/ccs|SoChr10E|0-7635\t60\t+,\n", " SoChr10E\t26575923\t26582076\tm84072_230515_103837_s3/93979849/ccs|SoChr10E|0-6153\t60\t+,\n", " SoChr10E\t26575945\t26582076\tm84072_230515_103837_s3/253758785/ccs|SoChr10E|0-6129\t60\t+,\n", " SoChr10E\t26576018\t26582078\tm84072_230515_103837_s3/206966673/ccs|SoChr10E|0-6063\t60\t+,\n", " SoChr10E\t26576622\t26582076\tm84072_230515_100731_s2/107678141/ccs|SoChr10E|0-5451\t60\t+,\n", " SoChr10E\t26576972\t26582075\tm64292e_230406_090856/95617075/ccs|SoChr10E|0-5105\t60\t+,\n", " SoChr10E\t26577095\t26582078\tm84072_230515_100731_s2/106501712/ccs|SoChr10E|0-4971\t60\t+,\n", " SoChr10E\t26577396\t26582079\tm84072_230515_103837_s3/217649915/ccs|SoChr10E|0-4681\t60\t+,\n", " SoChr10E\t26577930\t26582076\tm84072_230515_100731_s2/98307459/ccs|SoChr10E|0-4142\t60\t+,\n", " SoChr10E\t26578498\t26582077\tm84072_230515_103837_s3/239602174/ccs|SoChr10E|0-3585\t60\t+,\n", " SoChr10E\t26579140\t26580596\tm84072_230515_100731_s2/144772177/ccs|SoChr10E|0-1456\t60\t+],\n", " [SoChr10F\t24763473\t24776549\tm84072_230515_100731_s2/144772177/ccs|SoChr10F|1456-14523\t60\t+,\n", " SoChr10F\t24763476\t24782520\tm84072_230515_100731_s2/195891711/ccs|SoChr10F|9722-28758\t60\t+,\n", " SoChr10F\t24764954\t24772250\tm64292e_230406_090856/95617075/ccs|SoChr10F|5105-12402\t60\t+,\n", " SoChr10F\t24764955\t24772410\tm64292e_230406_090856/108857878/ccs|SoChr10F|9768-17222\t60\t+,\n", " SoChr10F\t24764955\t24779709\tm84072_230515_100731_s2/107678141/ccs|SoChr10F|5451-20203\t60\t+,\n", " SoChr10F\t24764955\t24786639\tm84072_230515_100731_s2/98307459/ccs|SoChr10F|4142-25820\t60\t+,\n", " SoChr10F\t24764955\t24774182\tm84072_230515_103837_s3/253758785/ccs|SoChr10F|6129-15352\t60\t+,\n", " SoChr10F\t24764955\t24780121\tm84072_230515_103837_s3/93979849/ccs|SoChr10F|6153-21318\t60\t+,\n", " SoChr10F\t24764956\t24778373\tm84072_230515_100731_s2/125046372/ccs|SoChr10F|7635-21042\t60\t+,\n", " SoChr10F\t24764956\t24784288\tm84072_230515_103837_s3/239602174/ccs|SoChr10F|3585-22918\t60\t+,\n", " SoChr10F\t24764957\t24791685\tm84072_230515_100731_s2/106501712/ccs|SoChr10F|4971-31651\t60\t+,\n", " SoChr10F\t24764957\t24772738\tm84072_230515_103837_s3/163779070/ccs|SoChr10F|10748-18527\t60\t+,\n", " SoChr10F\t24764957\t24787984\tm84072_230515_103837_s3/206966673/ccs|SoChr10F|6063-29107\t60\t+,\n", " SoChr10F\t24764958\t24783663\tm84072_230515_100731_s2/87032928/ccs|SoChr10F|9632-28339\t60\t+,\n", " SoChr10F\t24764958\t24786232\tm84072_230515_103837_s3/217649915/ccs|SoChr10F|4681-25955\t60\t+],\n", " [SoChr10G\t44498421\t44514338\tm84072_230515_103837_s3/13570902/ccs|SoChr10G|12734-28642\t60\t+,\n", " SoChr10G\t44498422\t44510377\tm84070_230525_081218_s1/55906740/ccs|SoChr10G|5207-17188\t60\t+,\n", " SoChr10G\t44498422\t44508754\tm84072_230515_100731_s2/112331425/ccs|SoChr10G|4952-15278\t60\t+,\n", " SoChr10G\t44498422\t44511341\tm84072_230515_100731_s2/122224992/ccs|SoChr10G|9373-22284\t60\t+,\n", " SoChr10G\t44498422\t44504069\tm84072_230515_100731_s2/193074387/ccs|SoChr10G|9861-15491\t60\t+,\n", " SoChr10G\t44498422\t44509562\tm84072_230515_100731_s2/69998352/ccs|SoChr10G|7428-18568\t60\t+,\n", " SoChr10G\t44498422\t44513138\tm84072_230515_103837_s3/109576925/ccs|SoChr10G|4703-19406\t60\t+,\n", " SoChr10G\t44498422\t44516187\tm84072_230515_103837_s3/135924982/ccs|SoChr10G|6194-23950\t60\t+,\n", " SoChr10G\t44498422\t44506182\tm84072_230515_103837_s3/152439659/ccs|SoChr10G|7441-15202\t60\t+,\n", " SoChr10G\t44498422\t44505136\tm84072_230515_103837_s3/227869933/ccs|SoChr10G|9758-16459\t60\t+,\n", " SoChr10G\t44498422\t44508640\tm84072_230515_103837_s3/250874195/ccs|SoChr10G|8279-18491\t60\t+],\n", " [SoChr10H\t29070445\t29085679\tm84072_230515_100731_s2/159124429/ccs|SoChr10H|0-15226\t60\t+,\n", " SoChr10H\t29074318\t29085681\tm84072_230515_100731_s2/32115867/ccs|SoChr10H|0-11366\t60\t+,\n", " SoChr10H\t29074444\t29085521\tm84072_230515_103837_s3/128058286/ccs|SoChr10H|0-11065\t60\t+,\n", " SoChr10H\t29075627\t29085680\tm84072_230515_100731_s2/117574760/ccs|SoChr10H|0-10046\t60\t+,\n", " SoChr10H\t29075739\t29085680\tm84072_230515_103837_s3/242159245/ccs|SoChr10H|0-9934\t60\t+,\n", " SoChr10H\t29076465\t29085680\tm84072_230515_100731_s2/122422966/ccs|SoChr10H|0-9209\t60\t+,\n", " SoChr10H\t29076898\t29085680\tm64292e_230406_090856/140706502/ccs|SoChr10H|0-8781\t60\t+,\n", " SoChr10H\t29078425\t29085442\tm84072_230515_100731_s2/128386700/ccs|SoChr10H|0-7012\t60\t+,\n", " SoChr10H\t29079321\t29085681\tm84072_230515_100731_s2/194707548/ccs|SoChr10H|0-6355\t60\t+,\n", " SoChr10H\t29080186\t29085681\tm84072_230515_100731_s2/252906447/ccs|SoChr10H|0-5481\t60\t+,\n", " SoChr10H\t29080297\t29085680\tm84072_230515_103837_s3/245371777/ccs|SoChr10H|0-5380\t60\t+,\n", " SoChr10H\t29080365\t29085517\tm84072_230515_103837_s3/166333427/ccs|SoChr10H|0-5152\t60\t+,\n", " SoChr10H\t29082244\t29085682\tm64292e_230406_090856/67569745/ccs|SoChr10H|0-3466\t60\t+,\n", " SoChr10H\t29082802\t29085517\tm84072_230515_103837_s3/43843789/ccs|SoChr10H|0-2715\t60\t+,\n", " SoChr10H\t29082821\t29085680\tm84072_230515_103837_s3/48300450/ccs|SoChr10H|0-2858\t60\t+],\n", " [SsChr02B\t34551818\t34566653\tm84072_230515_103837_s3/133174485/ccs|SsChr02B|2756-17595\t60\t+,\n", " SsChr02B\t34552134\t34571824\tm84072_230515_100731_s2/145689844/ccs|SsChr02B|2308-21997\t60\t+,\n", " SsChr02B\t34552136\t34565128\tm64292e_230406_090856/116197390/ccs|SsChr02B|5769-18761\t60\t+,\n", " SsChr02B\t34552136\t34558749\tm84070_230525_081218_s1/68490454/ccs|SsChr02B|10340-16956\t60\t+,\n", " SsChr02B\t34552136\t34570019\tm84072_230515_100731_s2/129635735/ccs|SsChr02B|5986-23874\t60\t+,\n", " SsChr02B\t34552136\t34578607\tm84072_230515_100731_s2/141168118/ccs|SsChr02B|4245-30713\t60\t+,\n", " SsChr02B\t34552136\t34559059\tm84072_230515_103837_s3/13566195/ccs|SsChr02B|8420-15342\t60\t+,\n", " SsChr02B\t34552136\t34567399\tm84072_230515_103837_s3/176096278/ccs|SsChr02B|1462-16737\t60\t+,\n", " SsChr02B\t34552136\t34558837\tm84072_230515_103837_s3/70060467/ccs|SsChr02B|12302-19001\t60\t+,\n", " SsChr02B\t34552136\t34568034\tm84072_230515_103837_s3/88932477/ccs|SsChr02B|1797-17700\t60\t+,\n", " SsChr02B\t34552137\t34558547\tm84072_230515_100731_s2/85918545/ccs|SsChr02B|11206-17616\t60\t+,\n", " SsChr02B\t34552137\t34556046\tm84072_230515_103837_s3/134745669/ccs|SsChr02B|15084-18994\t60\t+,\n", " SsChr02B\t34552137\t34562666\tm84072_230515_103837_s3/56099813/ccs|SsChr02B|13375-23904\t60\t+,\n", " SsChr02B\t34552137\t34559947\tm84072_230515_103837_s3/58331038/ccs|SsChr02B|15860-23675\t60\t+,\n", " SsChr02B\t34552137\t34561895\tm84072_230515_103837_s3/62195990/ccs|SsChr02B|5168-14912\t60\t+,\n", " SsChr02B\t34552138\t34563929\tm84072_230515_103837_s3/17107587/ccs|SsChr02B|9293-21085\t60\t+,\n", " SsChr02B\t34552142\t34569451\tm84072_230515_100731_s2/16124613/ccs|SsChr02B|8053-25347\t60\t+,\n", " SsChr02B\t34552143\t34561779\tm84072_230515_103837_s3/243796635/ccs|SsChr02B|12750-22386\t60\t+],\n", " [SsChr02B\t41399735\t41417749\tm84072_230515_100731_s2/66453836/ccs|SsChr02B|0-18013\t60\t+,\n", " SsChr02B\t41402469\t41417749\tm84072_230515_103837_s3/94178074/ccs|SsChr02B|0-15281\t60\t+,\n", " SsChr02B\t41403373\t41417749\tm84072_230515_103837_s3/174984663/ccs|SsChr02B|0-14362\t60\t+,\n", " SsChr02B\t41406298\t41417749\tm84072_230515_103837_s3/68752882/ccs|SsChr02B|0-11453\t60\t+,\n", " SsChr02B\t41406433\t41417750\tm84072_230515_100731_s2/56496569/ccs|SsChr02B|0-11315\t60\t+,\n", " SsChr02B\t41407117\t41417749\tm84072_230515_100731_s2/126944152/ccs|SsChr02B|0-10628\t60\t+,\n", " SsChr02B\t41407515\t41417749\tm64292e_230406_090856/101320504/ccs|SsChr02B|0-10232\t60\t+,\n", " SsChr02B\t41408424\t41417749\tm84070_230525_081218_s1/251794336/ccs|SsChr02B|0-9322\t60\t+,\n", " SsChr02B\t41410463\t41417750\tm84072_230515_100731_s2/178259852/ccs|SsChr02B|0-7286\t60\t+,\n", " SsChr02B\t41410678\t41417756\tm84072_230515_103837_s3/194511849/ccs|SsChr02B|0-7081\t60\t+,\n", " SsChr02B\t41410720\t41417749\tm84072_230515_100731_s2/45286190/ccs|SsChr02B|0-7028\t60\t+,\n", " SsChr02B\t41412273\t41417749\tm84072_230515_100731_s2/220072401/ccs|SsChr02B|0-5474\t60\t+,\n", " SsChr02B\t41413139\t41417749\tm84072_230515_103837_s3/227348643/ccs|SsChr02B|0-4610\t60\t+,\n", " SsChr02B\t41413344\t41417747\tm64292e_230406_090856/162334475/ccs|SsChr02B|0-4401\t60\t+,\n", " SsChr02B\t41413676\t41417749\tm84072_230515_103837_s3/28706799/ccs|SsChr02B|0-4072\t60\t+,\n", " SsChr02B\t41413976\t41417749\tm84072_230515_100731_s2/28117536/ccs|SsChr02B|0-3773\t60\t+,\n", " SsChr02B\t41414358\t41417749\tm84072_230515_103837_s3/58329843/ccs|SsChr02B|0-3391\t60\t+,\n", " SsChr02B\t41416170\t41417749\tm84072_230515_103837_s3/38997494/ccs|SsChr02B|0-1579\t60\t+],\n", " [SsChr02C\t74214656\t74220932\tm64292e_230406_090856/32638522/ccs|SsChr02C|15357-21998\t60\t+,\n", " SsChr02C\t74214656\t74223231\tm64292e_230406_090856/55838576/ccs|SsChr02C|7633-17289\t60\t+,\n", " SsChr02C\t74214656\t74218188\tm84072_230515_100731_s2/141953780/ccs|SsChr02C|25896-29776\t60\t+,\n", " SsChr02C\t74214656\t74218276\tm84072_230515_100731_s2/160959782/ccs|SsChr02C|17019-20989\t60\t+,\n", " SsChr02C\t74214656\t74222353\tm84072_230515_100731_s2/217123148/ccs|SsChr02C|13423-22394\t60\t+,\n", " SsChr02C\t74214656\t74217494\tm84072_230515_100731_s2/218107076/ccs|SsChr02C|9793-12981\t60\t+,\n", " SsChr02C\t74214656\t74225428\tm84072_230515_103837_s3/37620082/ccs|SsChr02C|10649-21771\t60\t+,\n", " SsChr02C\t74214656\t74226351\tm84072_230515_103837_s3/80675995/ccs|SsChr02C|11440-23484\t60\t+],\n", " [SsChr02D\t37462602\t37485256\tm84070_230525_081218_s1/58266037/ccs|SsChr02D|0-22666\t60\t+,\n", " SsChr02D\t37468572\t37485256\tm84072_230515_100731_s2/252251379/ccs|SsChr02D|0-16684\t60\t+,\n", " SsChr02D\t37470349\t37485257\tm64292e_230406_090856/79103493/ccs|SsChr02D|0-14910\t60\t+,\n", " SsChr02D\t37471382\t37485257\tm84072_230515_103837_s3/41618669/ccs|SsChr02D|0-13883\t60\t+,\n", " SsChr02D\t37471919\t37485255\tm84072_230515_103837_s3/234883487/ccs|SsChr02D|0-13337\t60\t+,\n", " SsChr02D\t37472189\t37485256\tm84070_230525_081218_s1/251592885/ccs|SsChr02D|0-13070\t60\t+,\n", " SsChr02D\t37474445\t37485255\tm64292e_230406_090856/165545114/ccs|SsChr02D|0-10846\t60\t+,\n", " SsChr02D\t37477352\t37485256\tm84072_230515_103837_s3/17631215/ccs|SsChr02D|0-7897\t60\t+,\n", " SsChr02D\t37477564\t37485255\tm84072_230515_103837_s3/154668019/ccs|SsChr02D|0-7701\t60\t+,\n", " SsChr02D\t37478487\t37485256\tm84072_230515_103837_s3/42536554/ccs|SsChr02D|0-6770\t60\t+,\n", " SsChr02D\t37481041\t37485257\tm84072_230515_100731_s2/59119249/ccs|SsChr02D|0-4209\t60\t+,\n", " SsChr02D\t37481733\t37485256\tm84072_230515_103837_s3/216008386/ccs|SsChr02D|0-3528\t60\t+,\n", " SsChr02D\t37481970\t37485256\tm84072_230515_100731_s2/94045047/ccs|SsChr02D|0-3285\t60\t+,\n", " SsChr02D\t37482014\t37485256\tm84070_230525_081218_s1/172687914/ccs|SsChr02D|0-3249\t60\t+,\n", " SsChr02D\t37482709\t37485256\tm84072_230515_100731_s2/218825415/ccs|SsChr02D|0-2547\t60\t+],\n", " [SsChr02E\t73883884\t73909786\tm84072_230515_100731_s2/141953780/ccs|SsChr02E|0-25896\t60\t+,\n", " SsChr02E\t73892763\t73909787\tm84072_230515_100731_s2/160959782/ccs|SsChr02E|0-17019\t58\t+,\n", " SsChr02E\t73894440\t73909781\tm64292e_230406_090856/32638522/ccs|SsChr02E|0-15357\t48\t+,\n", " SsChr02E\t73895431\t73908857\tm84072_230515_100731_s2/217123148/ccs|SsChr02E|0-13423\t49\t+,\n", " SsChr02E\t73897850\t73908947\tm84072_230515_100731_s2/210700794/ccs|SsChr02E|0-11096\t53\t+,\n", " SsChr02E\t73898344\t73909787\tm84072_230515_103837_s3/80675995/ccs|SsChr02E|0-11440\t49\t+,\n", " SsChr02E\t73899141\t73909786\tm84072_230515_103837_s3/37620082/ccs|SsChr02E|0-10649\t49\t+,\n", " SsChr02E\t73899995\t73909787\tm84072_230515_100731_s2/218107076/ccs|SsChr02E|0-9793\t42\t+,\n", " SsChr02E\t73901454\t73909070\tm64292e_230406_090856/55838576/ccs|SsChr02E|0-7633\t60\t+],\n", " [SsChr02H\t31193009\t31208863\tm84072_230515_103837_s3/58331038/ccs|SsChr02H|0-15860\t60\t+,\n", " SsChr02H\t31193776\t31208863\tm84072_230515_103837_s3/134745669/ccs|SsChr02H|0-15084\t60\t+,\n", " SsChr02H\t31195494\t31208863\tm84072_230515_103837_s3/56099813/ccs|SsChr02H|0-13375\t60\t+,\n", " SsChr02H\t31196113\t31208869\tm84072_230515_103837_s3/243796635/ccs|SsChr02H|0-12750\t60\t+,\n", " SsChr02H\t31196563\t31208862\tm84072_230515_103837_s3/70060467/ccs|SsChr02H|0-12302\t60\t+,\n", " SsChr02H\t31197654\t31208863\tm84072_230515_100731_s2/85918545/ccs|SsChr02H|0-11206\t60\t+,\n", " SsChr02H\t31198524\t31208862\tm84070_230525_081218_s1/68490454/ccs|SsChr02H|0-10340\t60\t+,\n", " SsChr02H\t31199573\t31208864\tm84072_230515_103837_s3/17107587/ccs|SsChr02H|0-9293\t60\t+,\n", " SsChr02H\t31200443\t31208862\tm84072_230515_103837_s3/13566195/ccs|SsChr02H|0-8420\t60\t+,\n", " SsChr02H\t31200806\t31208868\tm84072_230515_100731_s2/16124613/ccs|SsChr02H|0-8053\t60\t+,\n", " SsChr02H\t31202874\t31208862\tm84072_230515_100731_s2/129635735/ccs|SsChr02H|0-5986\t60\t+,\n", " SsChr02H\t31203094\t31208862\tm64292e_230406_090856/116197390/ccs|SsChr02H|0-5769\t60\t+,\n", " SsChr02H\t31203693\t31208863\tm84072_230515_103837_s3/62195990/ccs|SsChr02H|0-5168\t60\t+,\n", " SsChr02H\t31204616\t31208862\tm84072_230515_100731_s2/141168118/ccs|SsChr02H|0-4245\t60\t+,\n", " SsChr02H\t31205792\t31208545\tm84072_230515_103837_s3/133174485/ccs|SsChr02H|0-2756\t60\t+,\n", " SsChr02H\t31206551\t31208860\tm84072_230515_100731_s2/145689844/ccs|SsChr02H|0-2308\t60\t+,\n", " SsChr02H\t31207065\t31208862\tm84072_230515_103837_s3/88932477/ccs|SsChr02H|0-1797\t60\t+,\n", " SsChr02H\t31207399\t31208862\tm84072_230515_103837_s3/176096278/ccs|SsChr02H|0-1462\t60\t+],\n", " [SsChr02H\t37220029\t37223717\tm64292e_230406_090856/101320504/ccs|SsChr02H|10232-13932\t60\t+,\n", " SsChr02H\t37220029\t37229042\tm64292e_230406_090856/162334475/ccs|SsChr02H|4401-13426\t60\t+,\n", " SsChr02H\t37220029\t37232209\tm84070_230525_081218_s1/251794336/ccs|SsChr02H|9322-21515\t60\t+,\n", " SsChr02H\t37220029\t37225946\tm84072_230515_100731_s2/126944152/ccs|SsChr02H|10628-16556\t60\t+,\n", " SsChr02H\t37220029\t37242291\tm84072_230515_100731_s2/178259852/ccs|SsChr02H|7286-29548\t60\t+,\n", " SsChr02H\t37220029\t37232725\tm84072_230515_100731_s2/220072401/ccs|SsChr02H|5474-18181\t60\t+,\n", " SsChr02H\t37220029\t37235009\tm84072_230515_100731_s2/28117536/ccs|SsChr02H|3773-18758\t60\t+,\n", " SsChr02H\t37220029\t37231038\tm84072_230515_100731_s2/45286190/ccs|SsChr02H|7028-18049\t60\t+,\n", " SsChr02H\t37220029\t37230031\tm84072_230515_100731_s2/56496569/ccs|SsChr02H|11315-21321\t60\t+,\n", " SsChr02H\t37220029\t37222986\tm84072_230515_100731_s2/66453836/ccs|SsChr02H|18013-20980\t60\t+,\n", " SsChr02H\t37220029\t37231015\tm84072_230515_103837_s3/174984663/ccs|SsChr02H|14362-25353\t60\t+,\n", " SsChr02H\t37220029\t37228432\tm84072_230515_103837_s3/194511849/ccs|SsChr02H|7081-15500\t60\t+,\n", " SsChr02H\t37220029\t37235381\tm84072_230515_103837_s3/227348643/ccs|SsChr02H|4610-19970\t60\t+,\n", " SsChr02H\t37220029\t37236382\tm84072_230515_103837_s3/28706799/ccs|SsChr02H|4072-20436\t60\t+,\n", " SsChr02H\t37220029\t37236155\tm84072_230515_103837_s3/38997494/ccs|SsChr02H|1579-17721\t60\t+,\n", " SsChr02H\t37220029\t37239008\tm84072_230515_103837_s3/58329843/ccs|SsChr02H|3391-22376\t60\t+,\n", " SsChr02H\t37220029\t37223160\tm84072_230515_103837_s3/68752882/ccs|SsChr02H|11453-14596\t60\t+,\n", " SsChr02H\t37220029\t37223161\tm84072_230515_103837_s3/94178074/ccs|SsChr02H|15281-18425\t60\t+],\n", " [SsChr02I\t37821081\t37830101\tm64292e_230406_090856/165545114/ccs|SsChr02I|10846-19874\t60\t+,\n", " SsChr02I\t37821081\t37835660\tm84072_230515_103837_s3/154668019/ccs|SsChr02I|7701-22273\t60\t+,\n", " SsChr02I\t37821081\t37829038\tm84072_230515_103837_s3/234883487/ccs|SsChr02I|13337-21291\t60\t+,\n", " SsChr02I\t37821082\t37845388\tm84070_230525_081218_s1/172687914/ccs|SsChr02I|3249-27607\t60\t+,\n", " SsChr02I\t37821082\t37828824\tm84070_230525_081218_s1/251592885/ccs|SsChr02I|13070-20810\t60\t+,\n", " SsChr02I\t37821082\t37824004\tm84070_230525_081218_s1/58266037/ccs|SsChr02I|22666-25588\t60\t+,\n", " SsChr02I\t37821082\t37833034\tm84072_230515_100731_s2/218825415/ccs|SsChr02I|2547-14500\t60\t+,\n", " SsChr02I\t37821082\t37825721\tm84072_230515_100731_s2/252251379/ccs|SsChr02I|16684-21322\t60\t+,\n", " SsChr02I\t37821082\t37841227\tm84072_230515_100731_s2/94045047/ccs|SsChr02I|3285-23423\t60\t+,\n", " SsChr02I\t37821082\t37843757\tm84072_230515_103837_s3/17631215/ccs|SsChr02I|7897-30585\t60\t+,\n", " SsChr02I\t37821082\t37834599\tm84072_230515_103837_s3/216008386/ccs|SsChr02I|3528-17045\t60\t+,\n", " SsChr02I\t37821082\t37829931\tm84072_230515_103837_s3/42536554/ccs|SsChr02I|6770-15622\t60\t+,\n", " SsChr02I\t37821083\t37826139\tm64292e_230406_090856/79103493/ccs|SsChr02I|14910-19965\t60\t+,\n", " SsChr02I\t37821083\t37838405\tm84072_230515_100731_s2/59119249/ccs|SsChr02I|4209-21516\t60\t+,\n", " SsChr02I\t37821083\t37825277\tm84072_230515_103837_s3/41618669/ccs|SsChr02I|13883-18079\t60\t+],\n", " [SsChr03B\t78245610\t78265144\tm84072_230515_100731_s2/21890679/ccs|SsChr03B|0-19555\t60\t+,\n", " SsChr03B\t78247237\t78265143\tm84072_230515_100731_s2/101257562/ccs|SsChr03B|0-17908\t60\t+,\n", " SsChr03B\t78247349\t78265142\tm84072_230515_103837_s3/128912621/ccs|SsChr03B|0-17774\t60\t+,\n", " SsChr03B\t78247751\t78265143\tm84072_230515_100731_s2/92934788/ccs|SsChr03B|0-17385\t60\t+,\n", " SsChr03B\t78250155\t78265060\tm84072_230515_103837_s3/181408930/ccs|SsChr03B|0-14914\t60\t+,\n", " SsChr03B\t78250442\t78265143\tm84072_230515_100731_s2/30214026/ccs|SsChr03B|0-14685\t60\t+,\n", " SsChr03B\t78251962\t78265143\tm64292e_230406_090856/92799408/ccs|SsChr03B|0-13184\t60\t+,\n", " SsChr03B\t78252311\t78265143\tm64292e_230406_090856/70910246/ccs|SsChr03B|0-12962\t60\t+],\n", " [SsChr03B\t78266099\t78279947\tm84072_230515_100731_s2/235210742/ccs|SsChr03B|3599-17425\t60\t+,\n", " SsChr03B\t78266587\t78294282\tm84072_230515_100731_s2/255987556/ccs|SsChr03B|1075-28743\t60\t+,\n", " SsChr03B\t78266850\t78284718\tm84072_230515_100731_s2/191694008/ccs|SsChr03B|1384-19239\t60\t+,\n", " SsChr03B\t78266850\t78285710\tm84072_230515_100731_s2/224269693/ccs|SsChr03B|9414-28262\t60\t+,\n", " SsChr03B\t78266850\t78272442\tm84072_230515_100731_s2/227479011/ccs|SsChr03B|8276-13862\t60\t+,\n", " SsChr03B\t78266850\t78272895\tm84072_230515_100731_s2/34606025/ccs|SsChr03B|6708-12741\t60\t+,\n", " SsChr03B\t78266850\t78278357\tm84072_230515_100731_s2/35264007/ccs|SsChr03B|1559-13063\t60\t+,\n", " SsChr03B\t78266850\t78279380\tm84072_230515_100731_s2/40308230/ccs|SsChr03B|5427-17952\t60\t+,\n", " SsChr03B\t78266850\t78279188\tm84072_230515_100731_s2/79499940/ccs|SsChr03B|2840-15173\t60\t+,\n", " SsChr03B\t78266850\t78279875\tm84072_230515_103837_s3/116328167/ccs|SsChr03B|1528-14550\t60\t+,\n", " SsChr03B\t78266850\t78281349\tm84072_230515_103837_s3/39851266/ccs|SsChr03B|5653-20152\t60\t+,\n", " SsChr03B\t78266850\t78272538\tm84072_230515_103837_s3/58266823/ccs|SsChr03B|8016-13704\t60\t+,\n", " SsChr03B\t78266851\t78293371\tm84070_230525_081218_s1/216927817/ccs|SsChr03B|1943-28456\t60\t+,\n", " SsChr03B\t78266851\t78288035\tm84072_230515_100731_s2/48498549/ccs|SsChr03B|1821-22991\t60\t+,\n", " SsChr03B\t78266857\t78288781\tm84072_230515_103837_s3/207162522/ccs|SsChr03B|8660-30587\t60\t+],\n", " [SsChr03C\t77569286\t77576440\tm64292e_230406_090856/92799408/ccs|SsChr03C|13184-20370\t32\t-,\n", " SsChr03C\t77569660\t77576441\tm84072_230515_103837_s3/128912621/ccs|SsChr03C|17774-24575\t17\t-,\n", " SsChr03C\t77569998\t77576439\tm84072_230515_100731_s2/21890679/ccs|SsChr03C|19555-26033\t41\t-,\n", " SsChr03C\t77570664\t77576440\tm84072_230515_100731_s2/92934788/ccs|SsChr03C|17385-23189\t52\t-,\n", " SsChr03C\t77571879\t77576440\tm64292e_230406_090856/70910246/ccs|SsChr03C|12962-17575\t60\t-,\n", " SsChr03C\t77574067\t77576440\tm84072_230515_100731_s2/30214026/ccs|SsChr03C|14685-17042\t60\t-,\n", " SsChr03C\t77574604\t77576440\tm84072_230515_100731_s2/101257562/ccs|SsChr03C|17908-19744\t60\t-,\n", " SsChr03C\t77574607\t77583283\tm84072_230515_103837_s3/207162522/ccs|SsChr03C|0-8660\t24\t-,\n", " SsChr03C\t77574608\t77576550\tm84070_230525_081218_s1/216927817/ccs|SsChr03C|0-1943\t60\t-,\n", " SsChr03C\t77574608\t77576430\tm84072_230515_100731_s2/48498549/ccs|SsChr03C|0-1821\t60\t-,\n", " SsChr03C\t77574609\t77575994\tm84072_230515_100731_s2/191694008/ccs|SsChr03C|0-1384\t60\t-,\n", " SsChr03C\t77574609\t77584037\tm84072_230515_100731_s2/224269693/ccs|SsChr03C|0-9414\t19\t-,\n", " SsChr03C\t77574609\t77582892\tm84072_230515_100731_s2/227479011/ccs|SsChr03C|0-8276\t37\t-,\n", " SsChr03C\t77574609\t77581323\tm84072_230515_100731_s2/34606025/ccs|SsChr03C|0-6708\t47\t-,\n", " SsChr03C\t77574609\t77576168\tm84072_230515_100731_s2/35264007/ccs|SsChr03C|0-1559\t60\t-,\n", " SsChr03C\t77574609\t77580034\tm84072_230515_100731_s2/40308230/ccs|SsChr03C|0-5427\t60\t-,\n", " SsChr03C\t77574609\t77577448\tm84072_230515_100731_s2/79499940/ccs|SsChr03C|0-2840\t60\t-,\n", " SsChr03C\t77574609\t77576137\tm84072_230515_103837_s3/116328167/ccs|SsChr03C|0-1528\t60\t-,\n", " SsChr03C\t77574609\t77580251\tm84072_230515_103837_s3/39851266/ccs|SsChr03C|0-5653\t60\t-,\n", " SsChr03C\t77574609\t77582626\tm84072_230515_103837_s3/58266823/ccs|SsChr03C|0-8016\t33\t-,\n", " SsChr03C\t77574872\t77575947\tm84072_230515_100731_s2/255987556/ccs|SsChr03C|0-1075\t60\t-,\n", " SsChr03C\t77575360\t77578959\tm84072_230515_100731_s2/235210742/ccs|SsChr03C|0-3599\t60\t-,\n", " SsChr03C\t77575382\t77576523\tm84072_230515_103837_s3/181408930/ccs|SsChr03C|14914-16057\t60\t-],\n", " [SsChr04C\t68154384\t68180271\tm84072_230515_100731_s2/205586880/ccs|SsChr04C|0-25889\t60\t+,\n", " SsChr04C\t68156329\t68180271\tm84072_230515_100731_s2/35264150/ccs|SsChr04C|0-23935\t60\t+,\n", " SsChr04C\t68161605\t68180271\tm84072_230515_103837_s3/262801489/ccs|SsChr04C|0-18676\t60\t+,\n", " SsChr04C\t68163684\t68180271\tm84072_230515_103837_s3/234624850/ccs|SsChr04C|0-16582\t60\t+,\n", " SsChr04C\t68163849\t68180271\tm64292e_230406_090856/66259490/ccs|SsChr04C|0-16420\t60\t+,\n", " SsChr04C\t68168427\t68180271\tm84070_230525_081218_s1/25430900/ccs|SsChr04C|0-11858\t60\t+,\n", " SsChr04C\t68168656\t68180271\tm84072_230515_103837_s3/181997680/ccs|SsChr04C|0-11616\t60\t+,\n", " SsChr04C\t68168663\t68180267\tm84072_230515_103837_s3/47715842/ccs|SsChr04C|0-11608\t60\t+,\n", " SsChr04C\t68169122\t68180271\tm64292e_230406_090856/10029292/ccs|SsChr04C|0-11146\t60\t+,\n", " SsChr04C\t68169148\t68180271\tm84072_230515_100731_s2/193855537/ccs|SsChr04C|0-11112\t60\t+,\n", " SsChr04C\t68169385\t68180271\tm84072_230515_100731_s2/114756577/ccs|SsChr04C|0-10884\t60\t+,\n", " SsChr04C\t68170416\t68180271\tm84072_230515_103837_s3/224334463/ccs|SsChr04C|0-9855\t60\t+,\n", " SsChr04C\t68170868\t68180271\tm84072_230515_103837_s3/101188013/ccs|SsChr04C|0-9403\t60\t+,\n", " SsChr04C\t68171169\t68180271\tm84072_230515_103837_s3/111608033/ccs|SsChr04C|0-9101\t60\t+,\n", " SsChr04C\t68171333\t68180273\tm84072_230515_103837_s3/20385735/ccs|SsChr04C|0-8941\t60\t+,\n", " SsChr04C\t68171448\t68180271\tm84072_230515_103837_s3/33882414/ccs|SsChr04C|0-8819\t60\t+,\n", " SsChr04C\t68172134\t68180271\tm64292e_230406_090856/13371223/ccs|SsChr04C|0-8137\t60\t+,\n", " SsChr04C\t68174281\t68180271\tm84070_230525_081218_s1/144114608/ccs|SsChr04C|0-5994\t60\t+,\n", " SsChr04C\t68174854\t68180271\tm84072_230515_100731_s2/132254914/ccs|SsChr04C|0-5418\t60\t+,\n", " SsChr04C\t68175624\t68180268\tm84072_230515_103837_s3/233838458/ccs|SsChr04C|0-4648\t60\t+,\n", " SsChr04C\t68175668\t68180271\tm84072_230515_100731_s2/52367078/ccs|SsChr04C|0-4600\t60\t+,\n", " SsChr04C\t68175924\t68180271\tm64292e_230406_090856/27329807/ccs|SsChr04C|0-4347\t60\t+,\n", " SsChr04C\t68176221\t68180271\tm84072_230515_103837_s3/229573549/ccs|SsChr04C|0-4052\t60\t+,\n", " SsChr04C\t68176756\t68180271\tm84072_230515_100731_s2/162926128/ccs|SsChr04C|0-3514\t60\t+],\n", " [SsChr04D\t15682136\t15704499\tm84072_230515_103837_s3/238880896/ccs|SsChr04D|0-22333\t60\t+,\n", " SsChr04D\t15687028\t15704499\tm84072_230515_100731_s2/95685827/ccs|SsChr04D|0-17455\t60\t+,\n", " SsChr04D\t15688004\t15704500\tm84072_230515_100731_s2/167447184/ccs|SsChr04D|0-16497\t60\t+,\n", " SsChr04D\t15690870\t15704499\tm84072_230515_103837_s3/74057752/ccs|SsChr04D|0-13632\t60\t+,\n", " SsChr04D\t15692415\t15704499\tm84072_230515_100731_s2/101515541/ccs|SsChr04D|0-12082\t60\t+,\n", " SsChr04D\t15692426\t15704499\tm84072_230515_103837_s3/178524172/ccs|SsChr04D|0-12074\t60\t+,\n", " SsChr04D\t15692464\t15704499\tm64292e_230406_090856/8520168/ccs|SsChr04D|0-12037\t60\t+,\n", " SsChr04D\t15693645\t15704499\tm64292e_230406_090856/128125746/ccs|SsChr04D|0-10855\t60\t+,\n", " SsChr04D\t15693828\t15704499\tm84072_230515_103837_s3/170528839/ccs|SsChr04D|0-10673\t60\t+,\n", " SsChr04D\t15694655\t15704499\tm84072_230515_100731_s2/243337053/ccs|SsChr04D|0-9817\t60\t+,\n", " SsChr04D\t15696062\t15704499\tm84072_230515_100731_s2/58985964/ccs|SsChr04D|0-8436\t60\t+,\n", " SsChr04D\t15697049\t15704499\tm84072_230515_100731_s2/250414401/ccs|SsChr04D|0-7449\t60\t+],\n", " [SsChr04E\t22681996\t22692940\tm84072_230515_100731_s2/201655499/ccs|SsChr04E|22299-33221\t60\t+,\n", " SsChr04E\t22681999\t22687495\tm84072_230515_100731_s2/76682063/ccs|SsChr04E|13707-19208\t60\t+,\n", " SsChr04E\t22682001\t22688906\tm64292e_230406_090856/6096922/ccs|SsChr04E|10120-17023\t60\t+,\n", " SsChr04E\t22682001\t22688453\tm64292e_230406_090856/82707583/ccs|SsChr04E|12334-18797\t60\t+,\n", " SsChr04E\t22682001\t22689121\tm84072_230515_100731_s2/170463151/ccs|SsChr04E|7690-14809\t60\t+,\n", " SsChr04E\t22682001\t22685043\tm84072_230515_103837_s3/126551611/ccs|SsChr04E|11893-14935\t60\t+,\n", " SsChr04E\t22682001\t22692151\tm84072_230515_103837_s3/159848179/ccs|SsChr04E|5429-15576\t60\t+,\n", " SsChr04E\t22682001\t22684464\tm84072_230515_103837_s3/63508971/ccs|SsChr04E|28092-30558\t60\t+,\n", " SsChr04E\t22682001\t22693130\tm84072_230515_103837_s3/65277358/ccs|SsChr04E|16794-27933\t60\t+,\n", " SsChr04E\t22682001\t22687879\tm84072_230515_103837_s3/94835165/ccs|SsChr04E|13939-19817\t60\t+,\n", " SsChr04E\t22682004\t22686903\tm84072_230515_100731_s2/60162461/ccs|SsChr04E|14635-19528\t60\t+],\n", " [SsChr04F\t56382737\t56406712\tm84072_230515_100731_s2/137565518/ccs|SsChr04F|0-23974\t60\t+,\n", " SsChr04F\t56387987\t56406704\tm84072_230515_103837_s3/182455834/ccs|SsChr04F|0-18723\t60\t+,\n", " SsChr04F\t56389094\t56406704\tm84072_230515_103837_s3/4587903/ccs|SsChr04F|0-17611\t60\t+,\n", " SsChr04F\t56389239\t56406704\tm84072_230515_103837_s3/24776551/ccs|SsChr04F|0-17461\t60\t+,\n", " SsChr04F\t56391870\t56406713\tm84072_230515_100731_s2/224920716/ccs|SsChr04F|0-14725\t60\t+,\n", " SsChr04F\t56391899\t56406704\tm84072_230515_100731_s2/249627202/ccs|SsChr04F|0-14808\t60\t+,\n", " SsChr04F\t56392046\t56406704\tm64292e_230406_090856/87818404/ccs|SsChr04F|0-14658\t60\t+,\n", " SsChr04F\t56392596\t56406703\tm84072_230515_103837_s3/167121873/ccs|SsChr04F|0-14065\t60\t+,\n", " SsChr04F\t56393050\t56406704\tm64292e_230406_090856/77989296/ccs|SsChr04F|0-13652\t60\t+,\n", " SsChr04F\t56393205\t56406703\tm84072_230515_100731_s2/156698463/ccs|SsChr04F|0-13480\t60\t+,\n", " SsChr04F\t56393268\t56406697\tm84070_230525_081218_s1/84609661/ccs|SsChr04F|0-13457\t60\t+,\n", " SsChr04F\t56394456\t56406700\tm64292e_230406_090856/35915562/ccs|SsChr04F|0-12286\t60\t+,\n", " SsChr04F\t56395101\t56406704\tm84072_230515_100731_s2/243401797/ccs|SsChr04F|0-11606\t60\t+,\n", " SsChr04F\t56395634\t56406704\tm84072_230515_103837_s3/51975048/ccs|SsChr04F|0-11074\t60\t+,\n", " SsChr04F\t56395981\t56406704\tm84072_230515_100731_s2/94109799/ccs|SsChr04F|0-10716\t60\t+,\n", " SsChr04F\t56396133\t56406703\tm84072_230515_103837_s3/76878075/ccs|SsChr04F|0-10572\t60\t+,\n", " SsChr04F\t56396979\t56406704\tm84072_230515_100731_s2/241046411/ccs|SsChr04F|0-9723\t60\t+,\n", " SsChr04F\t56397375\t56406704\tm84072_230515_100731_s2/19727483/ccs|SsChr04F|0-9326\t60\t+,\n", " SsChr04F\t56398499\t56406704\tm84072_230515_103837_s3/61347317/ccs|SsChr04F|0-8205\t60\t+,\n", " SsChr04F\t56399661\t56406704\tm84072_230515_100731_s2/112919399/ccs|SsChr04F|0-7040\t60\t+,\n", " SsChr04F\t56400907\t56406704\tm84072_230515_103837_s3/59835060/ccs|SsChr04F|0-5793\t60\t+,\n", " SsChr04F\t56401317\t56406703\tm84072_230515_100731_s2/61999914/ccs|SsChr04F|0-5383\t60\t+,\n", " SsChr04F\t56401335\t56406704\tm84072_230515_103837_s3/77726959/ccs|SsChr04F|0-5369\t60\t+,\n", " SsChr04F\t56403058\t56406703\tm84072_230515_100731_s2/22151905/ccs|SsChr04F|0-3647\t60\t+,\n", " SsChr04F\t56404735\t56406704\tm84072_230515_100731_s2/11601379/ccs|SsChr04F|0-1969\t60\t+,\n", " SsChr04F\t56405147\t56406704\tm84072_230515_103837_s3/64491782/ccs|SsChr04F|0-1558\t60\t+,\n", " SsChr04F\t56405391\t56406704\tm84072_230515_100731_s2/246090245/ccs|SsChr04F|0-1314\t60\t+,\n", " SsChr04F\t56405576\t56406704\tm84072_230515_100731_s2/247074730/ccs|SsChr04F|0-1128\t60\t+,\n", " SsChr04F\t56405704\t56406693\tm84072_230515_103837_s3/87754310/ccs|SsChr04F|0-991\t60\t+],\n", " [SsChr04G\t14348962\t14356508\tm64292e_230406_090856/128125746/ccs|SsChr04G|10855-18401\t60\t+,\n", " SsChr04G\t14348962\t14349974\tm64292e_230406_090856/8520168/ccs|SsChr04G|12037-13049\t60\t+,\n", " SsChr04G\t14348962\t14350293\tm84072_230515_100731_s2/101515541/ccs|SsChr04G|12082-13414\t60\t+,\n", " SsChr04G\t14348962\t14355465\tm84072_230515_100731_s2/243337053/ccs|SsChr04G|9817-16294\t60\t+,\n", " SsChr04G\t14348962\t14357242\tm84072_230515_100731_s2/250414401/ccs|SsChr04G|7449-15723\t60\t+,\n", " SsChr04G\t14348962\t14355862\tm84072_230515_100731_s2/58985964/ccs|SsChr04G|8436-15335\t60\t+,\n", " SsChr04G\t14348962\t14356761\tm84072_230515_100731_s2/95685827/ccs|SsChr04G|17455-25265\t60\t+,\n", " SsChr04G\t14348962\t14354212\tm84072_230515_103837_s3/170528839/ccs|SsChr04G|10673-15921\t60\t+,\n", " SsChr04G\t14348962\t14358303\tm84072_230515_103837_s3/178524172/ccs|SsChr04G|12074-21427\t60\t+,\n", " SsChr04G\t14348962\t14350577\tm84072_230515_103837_s3/238880896/ccs|SsChr04G|22333-23944\t60\t+,\n", " SsChr04G\t14348962\t14355653\tm84072_230515_103837_s3/74057752/ccs|SsChr04G|13632-20324\t60\t+,\n", " SsChr04G\t14348963\t14363432\tm84072_230515_100731_s2/167447184/ccs|SsChr04G|16497-30964\t60\t+],\n", " [SsChr04H\t62501526\t62504713\tm64292e_230406_090856/10029292/ccs|SsChr04H|11146-14344\t60\t+,\n", " SsChr04H\t62501526\t62506067\tm64292e_230406_090856/13371223/ccs|SsChr04H|8137-12688\t60\t+,\n", " SsChr04H\t62501526\t62510362\tm64292e_230406_090856/27329807/ccs|SsChr04H|4347-13199\t60\t+,\n", " SsChr04H\t62501526\t62505109\tm64292e_230406_090856/66259490/ccs|SsChr04H|16420-20015\t60\t+,\n", " SsChr04H\t62501526\t62512300\tm84070_230525_081218_s1/144114608/ccs|SsChr04H|5994-16780\t60\t+,\n", " SsChr04H\t62501526\t62504610\tm84070_230525_081218_s1/25430900/ccs|SsChr04H|11858-14955\t60\t+,\n", " SsChr04H\t62501526\t62509158\tm84072_230515_100731_s2/114756577/ccs|SsChr04H|10884-18526\t60\t+,\n", " SsChr04H\t62501526\t62515614\tm84072_230515_100731_s2/132254914/ccs|SsChr04H|5418-19515\t60\t+,\n", " SsChr04H\t62501526\t62515881\tm84072_230515_100731_s2/162926128/ccs|SsChr04H|3514-17871\t60\t+,\n", " SsChr04H\t62501526\t62512051\tm84072_230515_100731_s2/193855537/ccs|SsChr04H|11112-21612\t60\t+,\n", " SsChr04H\t62501526\t62503543\tm84072_230515_100731_s2/205586880/ccs|SsChr04H|25889-27917\t60\t+,\n", " SsChr04H\t62501526\t62503841\tm84072_230515_100731_s2/35264150/ccs|SsChr04H|23935-26260\t60\t+,\n", " SsChr04H\t62501526\t62514480\tm84072_230515_100731_s2/52367078/ccs|SsChr04H|4600-17560\t60\t+,\n", " SsChr04H\t62501526\t62511152\tm84072_230515_103837_s3/101188013/ccs|SsChr04H|9403-19040\t60\t+,\n", " SsChr04H\t62501526\t62512415\tm84072_230515_103837_s3/111608033/ccs|SsChr04H|9101-20006\t60\t+,\n", " SsChr04H\t62501526\t62505280\tm84072_230515_103837_s3/181997680/ccs|SsChr04H|11616-15381\t60\t+,\n", " SsChr04H\t62501526\t62507322\tm84072_230515_103837_s3/20385735/ccs|SsChr04H|8941-14746\t60\t+,\n", " SsChr04H\t62501526\t62503400\tm84072_230515_103837_s3/224334463/ccs|SsChr04H|9855-11740\t60\t+,\n", " SsChr04H\t62501526\t62516391\tm84072_230515_103837_s3/229573549/ccs|SsChr04H|4052-18917\t60\t+,\n", " SsChr04H\t62501526\t62516635\tm84072_230515_103837_s3/233838458/ccs|SsChr04H|4648-19769\t60\t+,\n", " SsChr04H\t62501526\t62511411\tm84072_230515_103837_s3/234624850/ccs|SsChr04H|16582-26479\t60\t+,\n", " SsChr04H\t62501526\t62506941\tm84072_230515_103837_s3/262801489/ccs|SsChr04H|18676-24098\t60\t+,\n", " SsChr04H\t62501526\t62509121\tm84072_230515_103837_s3/33882414/ccs|SsChr04H|8819-16423\t60\t+,\n", " SsChr04H\t62501526\t62504299\tm84072_230515_103837_s3/47715842/ccs|SsChr04H|11608-14391\t60\t+],\n", " [SsChr04I\t21917110\t21945219\tm84072_230515_103837_s3/63508971/ccs|SsChr04I|0-28092\t60\t+,\n", " SsChr04I\t21922884\t21945214\tm84072_230515_100731_s2/201655499/ccs|SsChr04I|0-22299\t60\t+,\n", " SsChr04I\t21928430\t21945219\tm84072_230515_103837_s3/65277358/ccs|SsChr04I|0-16794\t60\t+,\n", " SsChr04I\t21930579\t21945222\tm84072_230515_100731_s2/60162461/ccs|SsChr04I|0-14635\t60\t+,\n", " SsChr04I\t21931274\t21945219\tm84072_230515_103837_s3/94835165/ccs|SsChr04I|0-13939\t60\t+,\n", " SsChr04I\t21931502\t21945217\tm84072_230515_100731_s2/76682063/ccs|SsChr04I|0-13707\t60\t+,\n", " SsChr04I\t21932897\t21945219\tm64292e_230406_090856/82707583/ccs|SsChr04I|0-12334\t60\t+,\n", " SsChr04I\t21933321\t21945219\tm84072_230515_103837_s3/126551611/ccs|SsChr04I|0-11893\t60\t+,\n", " SsChr04I\t21935095\t21945219\tm64292e_230406_090856/6096922/ccs|SsChr04I|0-10120\t60\t+,\n", " SsChr04I\t21937529\t21945219\tm84072_230515_100731_s2/170463151/ccs|SsChr04I|0-7690\t60\t+,\n", " SsChr04I\t21939790\t21945219\tm84072_230515_103837_s3/159848179/ccs|SsChr04I|0-5429\t60\t+],\n", " [SsChr04J\t55509312\t55538463\tm84072_230515_103837_s3/87754310/ccs|SsChr04J|991-30089\t60\t+,\n", " SsChr04J\t55509319\t55524058\tm64292e_230406_090856/35915562/ccs|SsChr04J|12286-27035\t60\t+,\n", " SsChr04J\t55509321\t55524091\tm84072_230515_100731_s2/156698463/ccs|SsChr04J|13480-28241\t60\t+,\n", " SsChr04J\t55509321\t55523127\tm84072_230515_100731_s2/22151905/ccs|SsChr04J|3647-17449\t60\t+,\n", " SsChr04J\t55509321\t55532314\tm84072_230515_100731_s2/61999914/ccs|SsChr04J|5383-28354\t60\t+,\n", " SsChr04J\t55509321\t55512188\tm84072_230515_103837_s3/76878075/ccs|SsChr04J|10572-13443\t60\t+,\n", " SsChr04J\t55509322\t55513337\tm64292e_230406_090856/77989296/ccs|SsChr04J|13652-17667\t60\t+,\n", " SsChr04J\t55509322\t55513937\tm64292e_230406_090856/87818404/ccs|SsChr04J|14658-19272\t60\t+,\n", " SsChr04J\t55509322\t55512818\tm84070_230525_081218_s1/84609661/ccs|SsChr04J|13457-16962\t60\t+,\n", " SsChr04J\t55509322\t55531485\tm84072_230515_100731_s2/112919399/ccs|SsChr04J|7040-29210\t60\t+,\n", " SsChr04J\t55509322\t55520578\tm84072_230515_100731_s2/11601379/ccs|SsChr04J|1969-13224\t60\t+,\n", " SsChr04J\t55509322\t55527110\tm84072_230515_100731_s2/19727483/ccs|SsChr04J|9326-27112\t60\t+,\n", " SsChr04J\t55509322\t55516959\tm84072_230515_100731_s2/241046411/ccs|SsChr04J|9723-17359\t60\t+,\n", " SsChr04J\t55509322\t55517449\tm84072_230515_100731_s2/243401797/ccs|SsChr04J|11606-19733\t60\t+,\n", " SsChr04J\t55509322\t55526530\tm84072_230515_100731_s2/246090245/ccs|SsChr04J|1314-18515\t60\t+,\n", " SsChr04J\t55509322\t55535111\tm84072_230515_100731_s2/247074730/ccs|SsChr04J|1128-26906\t60\t+,\n", " SsChr04J\t55509322\t55519369\tm84072_230515_100731_s2/249627202/ccs|SsChr04J|14808-24855\t60\t+,\n", " SsChr04J\t55509322\t55515090\tm84072_230515_100731_s2/94109799/ccs|SsChr04J|10716-16482\t60\t+,\n", " SsChr04J\t55509322\t55514887\tm84072_230515_103837_s3/167121873/ccs|SsChr04J|14065-19606\t60\t+,\n", " SsChr04J\t55509322\t55514159\tm84072_230515_103837_s3/182455834/ccs|SsChr04J|18723-23563\t60\t+,\n", " SsChr04J\t55509322\t55514051\tm84072_230515_103837_s3/24776551/ccs|SsChr04J|17461-22190\t60\t+,\n", " SsChr04J\t55509322\t55513355\tm84072_230515_103837_s3/4587903/ccs|SsChr04J|17611-21645\t60\t+,\n", " SsChr04J\t55509322\t55513834\tm84072_230515_103837_s3/51975048/ccs|SsChr04J|11074-15610\t60\t+,\n", " SsChr04J\t55509322\t55533762\tm84072_230515_103837_s3/59835060/ccs|SsChr04J|5793-30231\t60\t+,\n", " SsChr04J\t55509322\t55517629\tm84072_230515_103837_s3/61347317/ccs|SsChr04J|8205-16522\t60\t+,\n", " SsChr04J\t55509322\t55534259\tm84072_230515_103837_s3/64491782/ccs|SsChr04J|1558-26496\t60\t+,\n", " SsChr04J\t55509322\t55518103\tm84072_230515_103837_s3/77726959/ccs|SsChr04J|5369-14148\t60\t+,\n", " SsChr04J\t55509330\t55515088\tm84072_230515_100731_s2/137565518/ccs|SsChr04J|23974-29731\t60\t+,\n", " SsChr04J\t55509331\t55515433\tm84072_230515_100731_s2/224920716/ccs|SsChr04J|14725-20791\t60\t+],\n", " [SsChr05A\t21933617\t21959347\tm84072_230515_103837_s3/243994029/ccs|SsChr05A|0-25705\t60\t+,\n", " SsChr05A\t21938255\t21959347\tm84070_230525_081218_s1/94508335/ccs|SsChr05A|0-21103\t60\t+,\n", " SsChr05A\t21939547\t21959347\tm84072_230515_100731_s2/221970613/ccs|SsChr05A|0-19798\t60\t+,\n", " SsChr05A\t21941710\t21959347\tm64292e_230406_090856/44368245/ccs|SsChr05A|0-17630\t60\t+,\n", " SsChr05A\t21943710\t21959347\tm84072_230515_100731_s2/184615438/ccs|SsChr05A|0-15630\t60\t+,\n", " SsChr05A\t21945026\t21959347\tm84072_230515_100731_s2/159648323/ccs|SsChr05A|0-14315\t60\t+,\n", " SsChr05A\t21947632\t21959347\tm84072_230515_103837_s3/106632425/ccs|SsChr05A|0-11714\t60\t+,\n", " SsChr05A\t21947912\t21959346\tm84072_230515_100731_s2/161613825/ccs|SsChr05A|0-11429\t60\t+,\n", " SsChr05A\t21948540\t21959347\tm64292e_230406_090856/78579681/ccs|SsChr05A|0-10806\t60\t+,\n", " SsChr05A\t21948685\t21959347\tm84070_230525_081218_s1/162794456/ccs|SsChr05A|0-10658\t60\t+,\n", " SsChr05A\t21948691\t21959346\tm84072_230515_100731_s2/92932123/ccs|SsChr05A|0-10645\t60\t+,\n", " SsChr05A\t21949253\t21959347\tm84072_230515_100731_s2/7930637/ccs|SsChr05A|0-10097\t60\t+,\n", " SsChr05A\t21949531\t21959347\tm84072_230515_103837_s3/198251625/ccs|SsChr05A|0-9814\t60\t+,\n", " SsChr05A\t21950539\t21959347\tm84072_230515_100731_s2/20645353/ccs|SsChr05A|0-8804\t60\t+,\n", " SsChr05A\t21951766\t21959347\tm84072_230515_103837_s3/179244056/ccs|SsChr05A|0-7585\t60\t+,\n", " SsChr05A\t21952445\t21959347\tm64292e_230406_090856/15796419/ccs|SsChr05A|0-6899\t60\t+,\n", " SsChr05A\t21953441\t21959347\tm84072_230515_100731_s2/175771342/ccs|SsChr05A|0-5905\t60\t+,\n", " SsChr05A\t21954214\t21959347\tm84072_230515_103837_s3/137106312/ccs|SsChr05A|0-5134\t60\t+,\n", " SsChr05A\t21954789\t21959346\tm84072_230515_103837_s3/248119872/ccs|SsChr05A|0-4573\t60\t+,\n", " SsChr05A\t21954929\t21959346\tm84072_230515_103837_s3/139269354/ccs|SsChr05A|0-4419\t60\t+,\n", " SsChr05A\t21955434\t21959347\tm84072_230515_100731_s2/165479892/ccs|SsChr05A|0-3913\t60\t+,\n", " SsChr05A\t21955842\t21959347\tm84072_230515_100731_s2/139266578/ccs|SsChr05A|0-3505\t60\t+,\n", " SsChr05A\t21956059\t21959347\tm84072_230515_103837_s3/197067923/ccs|SsChr05A|0-3288\t60\t+,\n", " SsChr05A\t21956143\t21959342\tm84072_230515_103837_s3/197722507/ccs|SsChr05A|0-3205\t60\t+,\n", " SsChr05A\t21956500\t21959347\tm84072_230515_100731_s2/176099522/ccs|SsChr05A|0-2846\t60\t+,\n", " SsChr05A\t21956712\t21959347\tm84072_230515_103837_s3/255725527/ccs|SsChr05A|0-2635\t60\t+,\n", " SsChr05A\t21958181\t21959347\tm84070_230525_081218_s1/10749027/ccs|SsChr05A|0-1166\t60\t+],\n", " [SsChr05A\t57120999\t57136862\tm84072_230515_100731_s2/187502792/ccs|SsChr05A|14870-30704\t60\t+,\n", " SsChr05A\t57121107\t57141618\tm84072_230515_100731_s2/184484854/ccs|SsChr05A|3615-24188\t60\t+,\n", " SsChr05A\t57121314\t57136215\tm84072_230515_100731_s2/88346573/ccs|SsChr05A|10961-25916\t60\t+,\n", " SsChr05A\t57121315\t57128248\tm64292e_230406_090856/165284353/ccs|SsChr05A|7586-14519\t60\t+,\n", " SsChr05A\t57121315\t57145831\tm84072_230515_100731_s2/187499294/ccs|SsChr05A|7720-32225\t60\t+,\n", " SsChr05A\t57121362\t57130204\tm84072_230515_100731_s2/236984101/ccs|SsChr05A|13203-22041\t60\t+,\n", " SsChr05A\t57121363\t57126025\tm64292e_230406_090856/167315918/ccs|SsChr05A|6705-11367\t60\t+,\n", " SsChr05A\t57121363\t57126311\tm64292e_230406_090856/25824040/ccs|SsChr05A|6615-11565\t60\t+,\n", " SsChr05A\t57121363\t57137146\tm84070_230525_081218_s1/46797704/ccs|SsChr05A|8992-24774\t60\t+,\n", " SsChr05A\t57121363\t57134151\tm84072_230515_100731_s2/233772715/ccs|SsChr05A|11077-23838\t60\t+,\n", " SsChr05A\t57121363\t57137413\tm84072_230515_100731_s2/26937574/ccs|SsChr05A|4246-20302\t60\t+,\n", " SsChr05A\t57121363\t57131150\tm84072_230515_100731_s2/73273043/ccs|SsChr05A|7992-17779\t60\t+,\n", " SsChr05A\t57121363\t57141307\tm84072_230515_103837_s3/24642290/ccs|SsChr05A|3849-23790\t60\t+,\n", " SsChr05A\t57121363\t57133888\tm84072_230515_103837_s3/251265190/ccs|SsChr05A|4585-17113\t60\t+],\n", " [SsChr05B\t33407490\t33410163\tm64292e_230406_090856/54135360/ccs|SsChr05B|10891-13563\t60\t+,\n", " SsChr05B\t33407490\t33419544\tm64292e_230406_090856/8587145/ccs|SsChr05B|1367-13425\t60\t+,\n", " SsChr05B\t33407490\t33420201\tm84070_230525_081218_s1/140575763/ccs|SsChr05B|3244-15955\t60\t+,\n", " SsChr05B\t33407490\t33413881\tm84072_230515_103837_s3/106370364/ccs|SsChr05B|15776-22166\t60\t+,\n", " SsChr05B\t33407490\t33408805\tm84072_230515_103837_s3/183763591/ccs|SsChr05B|15314-16632\t60\t+,\n", " SsChr05B\t33407490\t33415661\tm84072_230515_103837_s3/239801154/ccs|SsChr05B|11608-19779\t60\t+,\n", " SsChr05B\t33407490\t33411679\tm84072_230515_103837_s3/59966578/ccs|SsChr05B|12577-16766\t60\t+,\n", " SsChr05B\t33407490\t33420184\tm84072_230515_103837_s3/67371736/ccs|SsChr05B|4164-16859\t60\t+,\n", " SsChr05B\t33407491\t33414894\tm84072_230515_100731_s2/155061501/ccs|SsChr05B|8728-16143\t60\t+,\n", " SsChr05B\t33407500\t33419508\tm64292e_230406_090856/139788692/ccs|SsChr05B|1568-13602\t60\t+],\n", " [SsChr05C\t22108933\t22122290\tm84072_230515_103837_s3/104926999/ccs|SsChr05C|0-13353\t60\t+,\n", " SsChr05C\t22110531\t22122289\tm84072_230515_103837_s3/230954772/ccs|SsChr05C|0-11779\t60\t+,\n", " SsChr05C\t22111285\t22122290\tm84072_230515_100731_s2/186386536/ccs|SsChr05C|0-11000\t60\t+,\n", " SsChr05C\t22116800\t22122290\tm64292e_230406_090856/12911520/ccs|SsChr05C|0-5504\t60\t+,\n", " SsChr05C\t22116823\t22122290\tm84072_230515_100731_s2/61673587/ccs|SsChr05C|0-5468\t60\t+,\n", " SsChr05C\t22118789\t22122290\tm84072_230515_103837_s3/71766536/ccs|SsChr05C|0-3500\t60\t+],\n", " [SsChr05D\t54590223\t54592318\tm84072_230515_100731_s2/2362062/ccs|SsChr05D|14037-16119\t60\t+,\n", " SsChr05D\t54590335\t54602862\tm84072_230515_100731_s2/216471185/ccs|SsChr05D|5301-17786\t60\t+,\n", " SsChr05D\t54590335\t54606451\tm84072_230515_100731_s2/26938550/ccs|SsChr05D|6091-22202\t60\t+,\n", " SsChr05D\t54590336\t54595156\tm64292e_230406_090856/120523235/ccs|SsChr05D|9133-13953\t60\t+,\n", " SsChr05D\t54590336\t54594134\tm64292e_230406_090856/169083339/ccs|SsChr05D|8391-12193\t60\t+,\n", " SsChr05D\t54590336\t54599424\tm84072_230515_100731_s2/106697882/ccs|SsChr05D|23083-32164\t60\t+,\n", " SsChr05D\t54590336\t54592819\tm84072_230515_100731_s2/140906733/ccs|SsChr05D|12866-15346\t60\t+,\n", " SsChr05D\t54590336\t54598096\tm84072_230515_100731_s2/172229891/ccs|SsChr05D|6584-14343\t60\t+,\n", " SsChr05D\t54590336\t54613036\tm84072_230515_100731_s2/19402628/ccs|SsChr05D|8820-31521\t60\t+,\n", " SsChr05D\t54590336\t54600385\tm84072_230515_100731_s2/237636061/ccs|SsChr05D|11215-21265\t60\t+,\n", " SsChr05D\t54590336\t54597899\tm84072_230515_100731_s2/246484995/ccs|SsChr05D|10432-17993\t60\t+,\n", " SsChr05D\t54590336\t54598626\tm84072_230515_100731_s2/252253819/ccs|SsChr05D|16925-25204\t60\t+,\n", " SsChr05D\t54590336\t54615453\tm84072_230515_100731_s2/84871868/ccs|SsChr05D|3001-28162\t60\t+,\n", " SsChr05D\t54590336\t54604229\tm84072_230515_103837_s3/103027774/ccs|SsChr05D|5966-19860\t60\t+,\n", " SsChr05D\t54590336\t54606297\tm84072_230515_103837_s3/128188612/ccs|SsChr05D|2734-18694\t60\t+,\n", " SsChr05D\t54590336\t54602358\tm84072_230515_103837_s3/171639694/ccs|SsChr05D|5083-17104\t60\t+,\n", " SsChr05D\t54590336\t54612349\tm84072_230515_103837_s3/33424251/ccs|SsChr05D|2749-24749\t60\t+,\n", " SsChr05D\t54590336\t54604410\tm84072_230515_103837_s3/65277492/ccs|SsChr05D|5544-19609\t60\t+,\n", " SsChr05D\t54590337\t54597928\tm84072_230515_103837_s3/56432563/ccs|SsChr05D|13768-21362\t60\t+,\n", " SsChr05D\t54590341\t54596811\tm64292e_230406_090856/159581754/ccs|SsChr05D|9554-16096\t60\t+],\n", " [SsChr05E\t20054839\t20075724\tm84072_230515_103837_s3/230954772/ccs|SsChr05E|11779-32678\t60\t+,\n", " SsChr05E\t20054840\t20071219\tm64292e_230406_090856/12911520/ccs|SsChr05E|5504-21902\t60\t+,\n", " SsChr05E\t20054840\t20066856\tm84072_230515_100731_s2/186386536/ccs|SsChr05E|11000-23018\t60\t+,\n", " SsChr05E\t20054840\t20065919\tm84072_230515_100731_s2/61673587/ccs|SsChr05E|5468-16548\t60\t+,\n", " SsChr05E\t20054840\t20065878\tm84072_230515_103837_s3/104926999/ccs|SsChr05E|13353-24391\t60\t+,\n", " SsChr05E\t20054840\t20064630\tm84072_230515_103837_s3/71766536/ccs|SsChr05E|3500-13290\t60\t+],\n", " [SsChr05F\t52133729\t52156816\tm84072_230515_100731_s2/106697882/ccs|SsChr05F|0-23083\t60\t+,\n", " SsChr05F\t52139887\t52156816\tm84072_230515_100731_s2/252253819/ccs|SsChr05F|0-16925\t60\t+,\n", " SsChr05F\t52142640\t52156707\tm84072_230515_100731_s2/2362062/ccs|SsChr05F|0-14037\t60\t+,\n", " SsChr05F\t52143054\t52156816\tm84072_230515_103837_s3/56432563/ccs|SsChr05F|0-13768\t60\t+,\n", " SsChr05F\t52143949\t52156816\tm84072_230515_100731_s2/140906733/ccs|SsChr05F|0-12866\t60\t+,\n", " SsChr05F\t52145605\t52156816\tm84072_230515_100731_s2/237636061/ccs|SsChr05F|0-11215\t60\t+,\n", " SsChr05F\t52146371\t52156816\tm84072_230515_100731_s2/246484995/ccs|SsChr05F|0-10432\t60\t+,\n", " SsChr05F\t52147302\t52156825\tm64292e_230406_090856/159581754/ccs|SsChr05F|0-9554\t60\t+,\n", " SsChr05F\t52147686\t52156816\tm64292e_230406_090856/120523235/ccs|SsChr05F|0-9133\t60\t+,\n", " SsChr05F\t52147996\t52156816\tm84072_230515_100731_s2/19402628/ccs|SsChr05F|0-8820\t60\t+,\n", " SsChr05F\t52148435\t52156816\tm64292e_230406_090856/169083339/ccs|SsChr05F|0-8391\t60\t+,\n", " SsChr05F\t52150233\t52156816\tm84072_230515_100731_s2/172229891/ccs|SsChr05F|0-6584\t60\t+,\n", " SsChr05F\t52150718\t52156816\tm84072_230515_100731_s2/26938550/ccs|SsChr05F|0-6091\t60\t+,\n", " SsChr05F\t52150856\t52156816\tm84072_230515_103837_s3/103027774/ccs|SsChr05F|0-5966\t60\t+,\n", " SsChr05F\t52151275\t52156816\tm84072_230515_103837_s3/65277492/ccs|SsChr05F|0-5544\t60\t+,\n", " SsChr05F\t52151582\t52156816\tm84072_230515_100731_s2/216471185/ccs|SsChr05F|0-5301\t60\t+,\n", " SsChr05F\t52151737\t52156816\tm84072_230515_103837_s3/171639694/ccs|SsChr05F|0-5083\t60\t+,\n", " SsChr05F\t52153826\t52156816\tm84072_230515_100731_s2/84871868/ccs|SsChr05F|0-3001\t60\t+,\n", " SsChr05F\t52154071\t52156816\tm84072_230515_103837_s3/33424251/ccs|SsChr05F|0-2749\t60\t+,\n", " SsChr05F\t52154086\t52156816\tm84072_230515_103837_s3/128188612/ccs|SsChr05F|0-2734\t60\t+],\n", " [SsChr05G\t22737894\t22752098\tm84072_230515_100731_s2/161613825/ccs|SsChr05G|11429-25638\t60\t+,\n", " SsChr05G\t22737894\t22748855\tm84072_230515_100731_s2/92932123/ccs|SsChr05G|10645-21600\t60\t+,\n", " SsChr05G\t22737894\t22751035\tm84072_230515_103837_s3/139269354/ccs|SsChr05G|4419-17543\t60\t+,\n", " SsChr05G\t22737894\t22747378\tm84072_230515_103837_s3/197722507/ccs|SsChr05G|3205-12688\t60\t+,\n", " SsChr05G\t22737894\t22746817\tm84072_230515_103837_s3/248119872/ccs|SsChr05G|4573-13517\t60\t+,\n", " SsChr05G\t22737895\t22746961\tm64292e_230406_090856/15796419/ccs|SsChr05G|6899-15961\t60\t+,\n", " SsChr05G\t22737895\t22738990\tm64292e_230406_090856/44368245/ccs|SsChr05G|17630-18724\t60\t+,\n", " SsChr05G\t22737895\t22745547\tm64292e_230406_090856/78579681/ccs|SsChr05G|10806-18457\t60\t+,\n", " SsChr05G\t22737895\t22752334\tm84070_230525_081218_s1/10749027/ccs|SsChr05G|1166-15610\t60\t+,\n", " SsChr05G\t22737895\t22740554\tm84070_230525_081218_s1/162794456/ccs|SsChr05G|10658-13315\t60\t+,\n", " SsChr05G\t22737895\t22741156\tm84070_230525_081218_s1/94508335/ccs|SsChr05G|21103-24363\t60\t+,\n", " SsChr05G\t22737895\t22758582\tm84072_230515_100731_s2/139266578/ccs|SsChr05G|3505-24188\t53\t+,\n", " SsChr05G\t22737895\t22745190\tm84072_230515_100731_s2/159648323/ccs|SsChr05G|14315-21608\t60\t+,\n", " SsChr05G\t22737895\t22747917\tm84072_230515_100731_s2/165479892/ccs|SsChr05G|3913-13934\t60\t+,\n", " SsChr05G\t22737895\t22752584\tm84072_230515_100731_s2/175771342/ccs|SsChr05G|5905-20591\t60\t+,\n", " SsChr05G\t22737895\t22760890\tm84072_230515_100731_s2/176099522/ccs|SsChr05G|2846-25825\t47\t+,\n", " SsChr05G\t22737895\t22740877\tm84072_230515_100731_s2/184615438/ccs|SsChr05G|15630-18609\t60\t+,\n", " SsChr05G\t22737895\t22744988\tm84072_230515_100731_s2/20645353/ccs|SsChr05G|8804-15888\t60\t+,\n", " SsChr05G\t22737895\t22748367\tm84072_230515_100731_s2/221970613/ccs|SsChr05G|19798-30269\t60\t+,\n", " SsChr05G\t22737895\t22744649\tm84072_230515_100731_s2/7930637/ccs|SsChr05G|10097-16849\t60\t+,\n", " SsChr05G\t22737895\t22740923\tm84072_230515_103837_s3/106632425/ccs|SsChr05G|11714-14742\t60\t+,\n", " SsChr05G\t22737895\t22759113\tm84072_230515_103837_s3/137106312/ccs|SsChr05G|5134-26348\t54\t+,\n", " SsChr05G\t22737895\t22748604\tm84072_230515_103837_s3/179244056/ccs|SsChr05G|7585-18298\t60\t+,\n", " SsChr05G\t22737895\t22752551\tm84072_230515_103837_s3/197067923/ccs|SsChr05G|3288-17943\t60\t+,\n", " SsChr05G\t22737895\t22754834\tm84072_230515_103837_s3/198251625/ccs|SsChr05G|9814-26752\t60\t+,\n", " SsChr05G\t22737895\t22743773\tm84072_230515_103837_s3/243994029/ccs|SsChr05G|25705-31578\t60\t+,\n", " SsChr05G\t22737895\t22751263\tm84072_230515_103837_s3/255725527/ccs|SsChr05G|2635-15995\t60\t+],\n", " [SsChr05G\t60246621\t60261529\tm84072_230515_100731_s2/187502792/ccs|SsChr05G|0-14870\t60\t+,\n", " SsChr05G\t60248687\t60261890\tm84072_230515_100731_s2/236984101/ccs|SsChr05G|0-13203\t60\t+,\n", " SsChr05G\t60250809\t60261891\tm84072_230515_100731_s2/233772715/ccs|SsChr05G|0-11077\t60\t+,\n", " SsChr05G\t60250882\t60261833\tm84072_230515_100731_s2/88346573/ccs|SsChr05G|0-10961\t60\t+,\n", " SsChr05G\t60252911\t60261891\tm84070_230525_081218_s1/46797704/ccs|SsChr05G|0-8992\t60\t+,\n", " SsChr05G\t60253900\t60261891\tm84072_230515_100731_s2/73273043/ccs|SsChr05G|0-7992\t60\t+,\n", " SsChr05G\t60254130\t60261843\tm84072_230515_100731_s2/187499294/ccs|SsChr05G|0-7720\t60\t+,\n", " SsChr05G\t60254258\t60261843\tm64292e_230406_090856/165284353/ccs|SsChr05G|0-7586\t60\t+,\n", " SsChr05G\t60255187\t60261891\tm64292e_230406_090856/167315918/ccs|SsChr05G|0-6705\t60\t+,\n", " SsChr05G\t60255277\t60261891\tm64292e_230406_090856/25824040/ccs|SsChr05G|0-6615\t60\t+,\n", " SsChr05G\t60257310\t60261891\tm84072_230515_103837_s3/251265190/ccs|SsChr05G|0-4585\t60\t+,\n", " SsChr05G\t60257649\t60261891\tm84072_230515_100731_s2/26937574/ccs|SsChr05G|0-4246\t60\t+,\n", " SsChr05G\t60258043\t60261891\tm84072_230515_103837_s3/24642290/ccs|SsChr05G|0-3849\t60\t+,\n", " SsChr05G\t60258048\t60261633\tm84072_230515_100731_s2/184484854/ccs|SsChr05G|0-3615\t60\t+],\n", " [SsChr05J\t28126973\t28142752\tm84072_230515_103837_s3/106370364/ccs|SsChr05J|0-15776\t60\t+,\n", " SsChr05J\t28127428\t28142752\tm84072_230515_103837_s3/183763591/ccs|SsChr05J|0-15314\t60\t+,\n", " SsChr05J\t28130175\t28142752\tm84072_230515_103837_s3/59966578/ccs|SsChr05J|0-12577\t60\t+,\n", " SsChr05J\t28131147\t28142752\tm84072_230515_103837_s3/239801154/ccs|SsChr05J|0-11608\t60\t+,\n", " SsChr05J\t28131861\t28142752\tm64292e_230406_090856/54135360/ccs|SsChr05J|0-10891\t60\t+,\n", " SsChr05J\t28134030\t28142753\tm84072_230515_100731_s2/155061501/ccs|SsChr05J|0-8728\t60\t+,\n", " SsChr05J\t28138588\t28142752\tm84072_230515_103837_s3/67371736/ccs|SsChr05J|0-4164\t60\t+,\n", " SsChr05J\t28139509\t28142752\tm84070_230525_081218_s1/140575763/ccs|SsChr05J|0-3244\t60\t+,\n", " SsChr05J\t28141202\t28142759\tm64292e_230406_090856/139788692/ccs|SsChr05J|0-1568\t60\t+,\n", " SsChr05J\t28141385\t28142752\tm64292e_230406_090856/8587145/ccs|SsChr05J|0-1367\t60\t+],\n", " [SsChr06D\t17873012\t17887384\tm84072_230515_103837_s3/39125852/ccs|SsChr06D|0-14369\t60\t+,\n", " SsChr06D\t17873732\t17887384\tm84072_230515_100731_s2/232718619/ccs|SsChr06D|0-13649\t60\t+,\n", " SsChr06D\t17876823\t17887390\tm84070_230525_081218_s1/91297402/ccs|SsChr06D|0-10575\t60\t+,\n", " SsChr06D\t17877199\t17887383\tm84072_230515_103837_s3/49614056/ccs|SsChr06D|0-10183\t60\t+,\n", " SsChr06D\t17877517\t17887384\tm84072_230515_100731_s2/18941351/ccs|SsChr06D|0-9862\t60\t+,\n", " SsChr06D\t17877919\t17887384\tm84070_230525_081218_s1/244649661/ccs|SsChr06D|0-9463\t60\t+,\n", " SsChr06D\t17878192\t17887384\tm84072_230515_100731_s2/150606584/ccs|SsChr06D|0-9186\t60\t+,\n", " SsChr06D\t17880252\t17887391\tm64292e_230406_090856/117836205/ccs|SsChr06D|0-7132\t60\t+,\n", " SsChr06D\t17882809\t17887384\tm84072_230515_103837_s3/100931253/ccs|SsChr06D|0-4571\t60\t+,\n", " SsChr06D\t17884330\t17887384\tm64292e_230406_090856/119210675/ccs|SsChr06D|0-3052\t60\t+,\n", " SsChr06D\t17884805\t17887384\tm84072_230515_100731_s2/185930559/ccs|SsChr06D|0-2577\t60\t+],\n", " [SsChr06F\t20196084\t20212306\tm84072_230515_103837_s3/49614056/ccs|SsChr06F|10183-26406\t60\t+,\n", " SsChr06F\t20196085\t20209578\tm64292e_230406_090856/119210675/ccs|SsChr06F|3052-16544\t60\t+,\n", " SsChr06F\t20196085\t20200631\tm84070_230525_081218_s1/244649661/ccs|SsChr06F|9463-14009\t60\t+,\n", " SsChr06F\t20196085\t20206040\tm84072_230515_100731_s2/150606584/ccs|SsChr06F|9186-19139\t60\t+,\n", " SsChr06F\t20196085\t20211704\tm84072_230515_100731_s2/185930559/ccs|SsChr06F|2577-18196\t60\t+,\n", " SsChr06F\t20196085\t20200578\tm84072_230515_100731_s2/18941351/ccs|SsChr06F|9862-14349\t60\t+,\n", " SsChr06F\t20196085\t20216157\tm84072_230515_100731_s2/232718619/ccs|SsChr06F|13649-33710\t60\t+,\n", " SsChr06F\t20196085\t20215589\tm84072_230515_103837_s3/100931253/ccs|SsChr06F|4571-24065\t60\t+,\n", " SsChr06F\t20196085\t20201162\tm84072_230515_103837_s3/39125852/ccs|SsChr06F|14369-19444\t60\t+,\n", " SsChr06F\t20196091\t20210312\tm84070_230525_081218_s1/91297402/ccs|SsChr06F|10575-24797\t60\t+,\n", " SsChr06F\t20196092\t20203615\tm64292e_230406_090856/117836205/ccs|SsChr06F|7132-14648\t60\t+],\n", " [SsChr07C\t47509344\t47522344\tm84072_230515_100731_s2/114885543/ccs|SsChr07C|0-12999\t60\t+,\n", " SsChr07C\t47510304\t47522344\tm84072_230515_100731_s2/234816701/ccs|SsChr07C|0-12033\t60\t+,\n", " SsChr07C\t47511108\t47522364\tm84072_230515_100731_s2/10356002/ccs|SsChr07C|0-11251\t60\t+,\n", " SsChr07C\t47511617\t47522344\tm84072_230515_103837_s3/165479497/ccs|SsChr07C|0-10726\t60\t+,\n", " SsChr07C\t47512007\t47522344\tm84072_230515_100731_s2/251596303/ccs|SsChr07C|0-10336\t60\t+,\n", " SsChr07C\t47512851\t47522349\tm84072_230515_103837_s3/185337439/ccs|SsChr07C|0-9520\t60\t+,\n", " SsChr07C\t47516798\t47522364\tm84072_230515_103837_s3/127274152/ccs|SsChr07C|0-5566\t60\t+],\n", " [SsChr07D\t47397513\t47402891\tm84072_230515_100731_s2/114885543/ccs|SsChr07D|12999-18377\t60\t+,\n", " SsChr07D\t47397513\t47401160\tm84072_230515_100731_s2/234816701/ccs|SsChr07D|12033-15676\t60\t+,\n", " SsChr07D\t47397513\t47401192\tm84072_230515_100731_s2/251596303/ccs|SsChr07D|10336-14015\t60\t+,\n", " SsChr07D\t47397513\t47406107\tm84072_230515_103837_s3/165479497/ccs|SsChr07D|10726-19323\t60\t+,\n", " SsChr07D\t47397518\t47409278\tm84072_230515_103837_s3/185337439/ccs|SsChr07D|9520-21308\t60\t+,\n", " SsChr07D\t47397533\t47407372\tm84072_230515_100731_s2/10356002/ccs|SsChr07D|11251-21089\t60\t+,\n", " SsChr07D\t47397533\t47407705\tm84072_230515_103837_s3/127274152/ccs|SsChr07D|5566-15737\t60\t+],\n", " [SsChr08F\t49830844\t49850511\tm84072_230515_100731_s2/212997466/ccs|SsChr08F|0-19654\t26\t+,\n", " SsChr08F\t49835245\t49850510\tm84072_230515_103837_s3/258478417/ccs|SsChr08F|0-15264\t30\t+,\n", " SsChr08F\t49836073\t49850511\tm84072_230515_100731_s2/102371060/ccs|SsChr08F|0-14438\t30\t+,\n", " SsChr08F\t49837936\t49850316\tm84072_230515_103837_s3/53939911/ccs|SsChr08F|0-12378\t35\t+,\n", " SsChr08F\t49839091\t49850511\tm64292e_230406_090856/134349075/ccs|SsChr08F|0-11423\t33\t+,\n", " SsChr08F\t49839286\t49850511\tm84072_230515_103837_s3/88017024/ccs|SsChr08F|0-11233\t34\t+,\n", " SsChr08F\t49839937\t49850511\tm84072_230515_100731_s2/205194652/ccs|SsChr08F|0-10574\t32\t+,\n", " SsChr08F\t49840327\t49850511\tm84072_230515_100731_s2/207820062/ccs|SsChr08F|0-10186\t34\t+,\n", " SsChr08F\t49844061\t49850511\tm84070_230525_081218_s1/47579489/ccs|SsChr08F|0-6449\t43\t+],\n", " [SsChr08H\t49537883\t49541312\tm84072_230515_103837_s3/53939911/ccs|SsChr08H|12378-15809\t60\t+,\n", " SsChr08H\t49538077\t49546391\tm84072_230515_103837_s3/258478417/ccs|SsChr08H|15264-23632\t60\t+,\n", " SsChr08H\t49538078\t49543650\tm64292e_230406_090856/134349075/ccs|SsChr08H|11423-16995\t60\t+,\n", " SsChr08H\t49538078\t49544063\tm84070_230525_081218_s1/47579489/ccs|SsChr08H|6449-12436\t60\t+,\n", " SsChr08H\t49538078\t49539756\tm84072_230515_100731_s2/102371060/ccs|SsChr08H|14438-16116\t60\t+,\n", " SsChr08H\t49538078\t49546106\tm84072_230515_100731_s2/205194652/ccs|SsChr08H|10574-18602\t60\t+,\n", " SsChr08H\t49538078\t49544024\tm84072_230515_100731_s2/207820062/ccs|SsChr08H|10186-16131\t60\t+,\n", " SsChr08H\t49538078\t49543905\tm84072_230515_100731_s2/212997466/ccs|SsChr08H|19654-25481\t60\t+,\n", " SsChr08H\t49538078\t49542677\tm84072_230515_103837_s3/88017024/ccs|SsChr08H|11233-15831\t60\t+]]" ] }, "execution_count": 38, "metadata": {}, "output_type": "execute_result" } ], "source": [ "# Merge the regions that are clustered\n", "merged = []\n", "for b in filtered:\n", " if merged and (merged[-1][-1].seqid == b.seqid and merged[-1][-1].end >= b.start):\n", " merged[-1].append(b)\n", " else:\n", " merged.append([b])\n", "merged" ] }, { "cell_type": "code", "execution_count": 55, "metadata": {}, "outputs": [], "source": [ "from collections import defaultdict\n", "\n", "region_to_reads = defaultdict(list)\n", "read_to_regions = defaultdict(list)\n", "for mb in merged:\n", " if len(mb) < 3:\n", " continue\n", " mb_start = int(np.median([b.start for b in mb]))\n", " mb_end = int(np.median([b.end for b in mb]))\n", " region_name = f\"{mb[0].seqid}:{mb_start}-{mb_end}\"\n", " for b in mb:\n", " region_to_reads[region_name].append(b.accn)\n", " read_name = b.accn.split(\"|\", 1)[0]\n", " read_to_regions[read_name].append(region_name)" ] }, { "cell_type": "code", "execution_count": 56, "metadata": {}, "outputs": [], "source": [ "pair_to_reads = defaultdict(list)\n", "for read, regions in read_to_regions.items():\n", " if len(regions) == 2:\n", " pair_to_reads[tuple(sorted(regions))].append(read)" ] }, { "cell_type": "code", "execution_count": 61, "metadata": {}, "outputs": [], "source": [ "import networkx as nx\n", "\n", "G = nx.Graph()\n", "for pair, reads in pair_to_reads.items():\n", " G.add_edge(*pair, weight=len(reads))" ] }, { "cell_type": "code", "execution_count": 69, "metadata": {}, "outputs": [ { "data": { "image/png": "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", "text/plain": [ "
" ] }, "metadata": {}, "output_type": "display_data" } ], "source": [ "nx.draw_circular(G, with_labels=False, node_size=10)" ] }, { "cell_type": "code", "execution_count": 83, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "[('SoChr01A:118800967-118804125', 'SoChr01D:80512239-80524815'),\n", " ('SoChr01B:43136036-43151243', 'SoChr01F:35494024-35499274'),\n", " ('SoChr01B:86382022-86393472', 'SoChr01F:89164392-89169376'),\n", " ('SoChr01C:87523314-87532783', 'SoChr01E:93438110-93447370'),\n", " ('SoChr02A:49296455-49305190', 'SoChr02C:47192815-47201530'),\n", " ('SoChr02E:20367476-20379487', 'SoChr02F:24366271-24374472'),\n", " ('SoChr02E:83164448-83171941', 'SoChr02F:91072756-91082844'),\n", " ('SoChr03B:18810625-18821646', 'SoChr03G:17984274-17993407'),\n", " ('SoChr03D:45444896-45457816', 'SoChr03F:49285154-49291410'),\n", " ('SoChr05B:29369853-29375295', 'SoChr05D:24451705-24468152'),\n", " ('SoChr06D:36030785-36034867', 'SoChr06F:39747122-39766294'),\n", " ('SoChr06E:39115833-39126082', 'SoChr06G:37110339-37118790'),\n", " ('SoChr07A:16261928-16272055', 'SoChr07H:18394989-18405408'),\n", " ('SoChr07D:10606031-10612359', 'SoChr07G:13114561-13127983'),\n", " ('SoChr08C:42947839-42959136', 'SoChr08E:47836297-47845109'),\n", " ('SoChr08F:41728694-41741739', 'SoChr08G:42406558-42414505'),\n", " ('SoChr09A:12674332-12677010', 'SoChr09D:11618805-11639176'),\n", " ('SoChr09C:62527825-62530351', 'SoChr09H:60750000-60765545'),\n", " ('SoChr09C:8260085-8268425', 'SoChr09H:9651157-9662806'),\n", " ('SoChr09D:11594724-11608130', 'SoChr09F:13468031-13475179'),\n", " ('SoChr09F:11676148-11688046', 'SoChr09G:10145496-10156246'),\n", " ('SoChr10A:23992802-24005981', 'SoChr10B:27997196-28009368'),\n", " ('SoChr10A:39768937-39780658', 'SoChr10B:43423074-43431131'),\n", " ('SoChr10C:47361891-47369330', 'SoChr10G:44498423-44509562'),\n", " ('SoChr10D:26873546-26884760', 'SoChr10H:29078426-29085680'),\n", " ('SoChr10E:26576019-26582076', 'SoChr10F:24764956-24780121'),\n", " ('SsChr02B:34552137-34563297', 'SsChr02H:31200625-31208862'),\n", " ('SsChr02B:41410571-41417749', 'SsChr02H:37220030-37231026'),\n", " ('SsChr02C:74214657-74221642', 'SsChr02E:73897851-73909786'),\n", " ('SsChr02D:37477353-37485256', 'SsChr02I:37821083-37830101'),\n", " ('SsChr03B:78266851-78279947', 'SsChr03C:77574610-77576441'),\n", " ('SsChr04C:68170643-68180271', 'SsChr04H:62501527-62509139'),\n", " ('SsChr04D:15692446-15704499', 'SsChr04G:14348963-14355757'),\n", " ('SsChr04E:22682002-22688453', 'SsChr04I:21931503-21945219'),\n", " ('SsChr04F:56395982-56406704', 'SsChr04J:55509323-55517629'),\n", " ('SsChr05A:21950540-21959347', 'SsChr05G:22737896-22747917'),\n", " ('SsChr05A:57121364-57135183', 'SsChr05G:60254195-60261891'),\n", " ('SsChr05B:33407491-33415277', 'SsChr05J:28132946-28142752'),\n", " ('SsChr05C:22114043-22122290', 'SsChr05E:20054841-20066387'),\n", " ('SsChr05D:54590337-54599904', 'SsChr05F:52148216-52156816'),\n", " ('SsChr06D:17877920-17887384', 'SsChr06F:20196086-20209578'),\n", " ('SsChr07C:47511618-47522344', 'SsChr07D:47397514-47406107'),\n", " ('SsChr08F:49839092-49850511', 'SsChr08H:49538079-49543905')]" ] }, "execution_count": 83, "metadata": {}, "output_type": "execute_result" } ], "source": [ "valid_pairs = sorted(tuple(sorted(x)) for x in nx.max_weight_matching(G))\n", "valid_pairs" ] }, { "cell_type": "code", "execution_count": 84, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "(67, 43)" ] }, "execution_count": 84, "metadata": {}, "output_type": "execute_result" } ], "source": [ "len(pair_to_reads), len(valid_pairs)" ] }, { "cell_type": "code", "execution_count": 85, "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "('SoChr01A:118800967-118804125', 'SoChr01D:80512239-80524815') 7\n", "('SoChr01B:43136036-43151243', 'SoChr01F:35494024-35499274') 13\n", "('SoChr01B:86382022-86393472', 'SoChr01F:89164392-89169376') 13\n", "('SoChr01C:87523314-87532783', 'SoChr01E:93438110-93447370') 18\n", "('SoChr02A:49296455-49305190', 'SoChr02C:47192815-47201530') 23\n", "('SoChr02E:20367476-20379487', 'SoChr02F:24366271-24374472') 7\n", "('SoChr02E:83164448-83171941', 'SoChr02F:91072756-91082844') 10\n", "('SoChr03B:18810625-18821646', 'SoChr03G:17984274-17993407') 20\n", "('SoChr03D:45444896-45457816', 'SoChr03F:49285154-49291410') 25\n", "('SoChr05B:29369853-29375295', 'SoChr05D:24451705-24468152') 5\n", "('SoChr06D:36030785-36034867', 'SoChr06F:39747122-39766294') 7\n", "('SoChr06E:39115833-39126082', 'SoChr06G:37110339-37118790') 15\n", "('SoChr07A:16261928-16272055', 'SoChr07H:18394989-18405408') 9\n", "('SoChr07D:10606031-10612359', 'SoChr07G:13114561-13127983') 6\n", "('SoChr08C:42947839-42959136', 'SoChr08E:47836297-47845109') 20\n", "('SoChr08F:41728694-41741739', 'SoChr08G:42406558-42414505') 10\n", "('SoChr09A:12674332-12677010', 'SoChr09D:11618805-11639176') 3\n", "('SoChr09C:62527825-62530351', 'SoChr09H:60750000-60765545') 15\n", "('SoChr09C:8260085-8268425', 'SoChr09H:9651157-9662806') 19\n", "('SoChr09D:11594724-11608130', 'SoChr09F:13468031-13475179') 16\n", "('SoChr09F:11676148-11688046', 'SoChr09G:10145496-10156246') 10\n", "('SoChr10A:23992802-24005981', 'SoChr10B:27997196-28009368') 6\n", "('SoChr10A:39768937-39780658', 'SoChr10B:43423074-43431131') 14\n", "('SoChr10C:47361891-47369330', 'SoChr10G:44498423-44509562') 11\n", "('SoChr10D:26873546-26884760', 'SoChr10H:29078426-29085680') 15\n", "('SoChr10E:26576019-26582076', 'SoChr10F:24764956-24780121') 15\n", "('SsChr02B:34552137-34563297', 'SsChr02H:31200625-31208862') 18\n", "('SsChr02B:41410571-41417749', 'SsChr02H:37220030-37231026') 18\n", "('SsChr02C:74214657-74221642', 'SsChr02E:73897851-73909786') 8\n", "('SsChr02D:37477353-37485256', 'SsChr02I:37821083-37830101') 15\n", "('SsChr03B:78266851-78279947', 'SsChr03C:77574610-77576441') 15\n", "('SsChr04C:68170643-68180271', 'SsChr04H:62501527-62509139') 24\n", "('SsChr04D:15692446-15704499', 'SsChr04G:14348963-14355757') 12\n", "('SsChr04E:22682002-22688453', 'SsChr04I:21931503-21945219') 11\n", "('SsChr04F:56395982-56406704', 'SsChr04J:55509323-55517629') 29\n", "('SsChr05A:21950540-21959347', 'SsChr05G:22737896-22747917') 27\n", "('SsChr05A:57121364-57135183', 'SsChr05G:60254195-60261891') 14\n", "('SsChr05B:33407491-33415277', 'SsChr05J:28132946-28142752') 10\n", "('SsChr05C:22114043-22122290', 'SsChr05E:20054841-20066387') 6\n", "('SsChr05D:54590337-54599904', 'SsChr05F:52148216-52156816') 20\n", "('SsChr06D:17877920-17887384', 'SsChr06F:20196086-20209578') 11\n", "('SsChr07C:47511618-47522344', 'SsChr07D:47397514-47406107') 7\n", "('SsChr08F:49839092-49850511', 'SsChr08H:49538079-49543905') 9\n" ] } ], "source": [ "for pair in valid_pairs:\n", " print(pair, len(pair_to_reads[pair]))" ] }, { "cell_type": "code", "execution_count": 86, "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "('SoChr01A:118800967-118804125', 'SoChr01D:80512239-80524815') ['m84072_230515_103837_s3/69801496/ccs', 'm84072_230515_100731_s2/102829007/ccs', 'm84072_230515_100731_s2/184226232/ccs', 'm84072_230515_100731_s2/51056073/ccs', 'm84072_230515_103837_s3/114757534/ccs', 'm84072_230515_103837_s3/214240488/ccs', 'm84072_230515_103837_s3/96802497/ccs']\n", "('SoChr01B:43136036-43151243', 'SoChr01F:35494024-35499274') ['m84072_230515_100731_s2/103810093/ccs', 'm84072_230515_100731_s2/163973073/ccs', 'm84072_230515_100731_s2/246159031/ccs', 'm84072_230515_103837_s3/104730961/ccs', 'm84072_230515_103837_s3/130812980/ccs', 'm84072_230515_103837_s3/228196963/ccs', 'm84072_230515_103837_s3/237898617/ccs', 'm84072_230515_103837_s3/44176013/ccs', 'm84072_230515_103837_s3/58593168/ccs', 'm84072_230515_103837_s3/90445395/ccs', 'm84072_230515_100731_s2/231540847/ccs', 'm84072_230515_103837_s3/165286688/ccs', 'm84072_230515_103837_s3/229114536/ccs']\n", "('SoChr01B:86382022-86393472', 'SoChr01F:89164392-89169376') ['m64292e_230406_090856/135070089/ccs', 'm84072_230515_103837_s3/156107566/ccs', 'm84072_230515_103837_s3/228918928/ccs', 'm84072_230515_103837_s3/167514038/ccs', 'm64292e_230406_090856/24644430/ccs', 'm84070_230525_081218_s1/136185273/ccs', 'm84070_230525_081218_s1/163645005/ccs', 'm64292e_230406_090856/49284469/ccs', 'm84072_230515_103837_s3/51711926/ccs', 'm84072_230515_103837_s3/199889968/ccs', 'm64292e_230406_090856/94438245/ccs', 'm84072_230515_103837_s3/259916967/ccs', 'm84072_230515_103837_s3/252776687/ccs']\n", "('SoChr01C:87523314-87532783', 'SoChr01E:93438110-93447370') ['m84072_230515_103837_s3/84545864/ccs', 'm84072_230515_103837_s3/183895132/ccs', 'm84072_230515_100731_s2/73928793/ccs', 'm84070_230525_081218_s1/133431919/ccs', 'm84072_230515_100731_s2/29229208/ccs', 'm84072_230515_103837_s3/97584610/ccs', 'm84072_230515_100731_s2/36115164/ccs', 'm64292e_230406_090856/102236818/ccs', 'm84072_230515_103837_s3/107350610/ccs', 'm84072_230515_103837_s3/91819543/ccs', 'm84072_230515_103837_s3/16453979/ccs', 'm84072_230515_103837_s3/141823763/ccs', 'm84072_230515_100731_s2/139198536/ccs', 'm84072_230515_100731_s2/168495803/ccs', 'm84072_230515_103837_s3/242094070/ccs', 'm84072_230515_100731_s2/241895431/ccs', 'm84072_230515_103837_s3/113968571/ccs', 'm84072_230515_100731_s2/18092634/ccs']\n", "('SoChr02A:49296455-49305190', 'SoChr02C:47192815-47201530') ['m84072_230515_100731_s2/168561712/ccs', 'm84072_230515_100731_s2/161153193/ccs', 'm84072_230515_100731_s2/216929013/ccs', 'm84072_230515_103837_s3/12976651/ccs', 'm84072_230515_103837_s3/224002205/ccs', 'm84072_230515_103837_s3/8128848/ccs', 'm84072_230515_103837_s3/41814828/ccs', 'm84072_230515_103837_s3/188351295/ccs', 'm84072_230515_100731_s2/162203462/ccs', 'm84072_230515_100731_s2/169480395/ccs', 'm84072_230515_100731_s2/174067132/ccs', 'm64292e_230406_090856/1378287/ccs', 'm84072_230515_100731_s2/6949924/ccs', 'm84072_230515_103837_s3/249037282/ccs', 'm84072_230515_100731_s2/66197068/ccs', 'm84072_230515_100731_s2/167577208/ccs', 'm84072_230515_103837_s3/254482131/ccs', 'm84072_230515_100731_s2/28577051/ccs', 'm84072_230515_103837_s3/135004298/ccs', 'm84072_230515_100731_s2/68686259/ccs', 'm64292e_230406_090856/63833145/ccs', 'm84072_230515_100731_s2/119934444/ccs', 'm84072_230515_100731_s2/159451258/ccs']\n", "('SoChr02E:20367476-20379487', 'SoChr02F:24366271-24374472') ['m84072_230515_100731_s2/81397974/ccs', 'm84072_230515_100731_s2/94045914/ccs', 'm64292e_230406_090856/128910716/ccs', 'm84072_230515_103837_s3/258019391/ccs', 'm84072_230515_103837_s3/165352629/ccs', 'm84072_230515_100731_s2/158011613/ccs', 'm84072_230515_100731_s2/196545860/ccs']\n", "('SoChr02E:83164448-83171941', 'SoChr02F:91072756-91082844') ['m64292e_230406_090856/44695560/ccs', 'm84072_230515_100731_s2/118228007/ccs', 'm84072_230515_100731_s2/160302408/ccs', 'm84072_230515_103837_s3/140248634/ccs', 'm84072_230515_103837_s3/187042569/ccs', 'm84072_230515_103837_s3/90181502/ccs', 'm64292e_230406_090856/20121172/ccs', 'm84072_230515_100731_s2/130288551/ccs', 'm84072_230515_103837_s3/251072771/ccs', 'm84072_230515_103837_s3/241631881/ccs']\n", "('SoChr03B:18810625-18821646', 'SoChr03G:17984274-17993407') ['m84072_230515_100731_s2/199819788/ccs', 'm84072_230515_103837_s3/59179358/ccs', 'm84072_230515_103837_s3/235280280/ccs', 'm84072_230515_103837_s3/225774114/ccs', 'm84072_230515_103837_s3/178327673/ccs', 'm84070_230525_081218_s1/39059868/ccs', 'm84072_230515_100731_s2/176624674/ccs', 'm84072_230515_100731_s2/191302941/ccs', 'm84072_230515_100731_s2/264835027/ccs', 'm84072_230515_100731_s2/35654323/ccs', 'm84072_230515_100731_s2/6226699/ccs', 'm84072_230515_100731_s2/69207941/ccs', 'm84072_230515_103837_s3/100210610/ccs', 'm84072_230515_103837_s3/172491061/ccs', 'm84072_230515_103837_s3/39191403/ccs', 'm84072_230515_103837_s3/51778944/ccs', 'm84072_230515_103837_s3/71368804/ccs', 'm84072_230515_100731_s2/171901774/ccs', 'm84072_230515_100731_s2/98964975/ccs', 'm64292e_230406_090856/146016753/ccs']\n", "('SoChr03D:45444896-45457816', 'SoChr03F:49285154-49291410') ['m84070_230525_081218_s1/106105916/ccs', 'm84072_230515_100731_s2/211752857/ccs', 'm84072_230515_100731_s2/66060835/ccs', 'm84072_230515_103837_s3/251204440/ccs', 'm64292e_230406_090856/96993931/ccs', 'm84070_230525_081218_s1/82053471/ccs', 'm84072_230515_100731_s2/104795935/ccs', 'm84072_230515_100731_s2/148311482/ccs', 'm84072_230515_100731_s2/178391249/ccs', 'm84072_230515_100731_s2/202708337/ccs', 'm84072_230515_100731_s2/208799203/ccs', 'm84072_230515_100731_s2/215226117/ccs', 'm84072_230515_100731_s2/217581539/ccs', 'm84072_230515_100731_s2/234819548/ccs', 'm84072_230515_100731_s2/242095735/ccs', 'm84072_230515_100731_s2/61214702/ccs', 'm84072_230515_103837_s3/132584293/ccs', 'm84072_230515_103837_s3/153422974/ccs', 'm84072_230515_103837_s3/165413420/ccs', 'm84072_230515_103837_s3/215681259/ccs', 'm84072_230515_103837_s3/25692917/ccs', 'm84072_230515_103837_s3/35260414/ccs', 'm84072_230515_103837_s3/197134208/ccs', 'm84072_230515_100731_s2/228919019/ccs', 'm84070_230525_081218_s1/100273445/ccs']\n", "('SoChr05B:29369853-29375295', 'SoChr05D:24451705-24468152') ['m84072_230515_100731_s2/132779650/ccs', 'm84072_230515_103837_s3/119213460/ccs', 'm84072_230515_103837_s3/138220909/ccs', 'm84072_230515_100731_s2/239798191/ccs', 'm84072_230515_103837_s3/133435217/ccs']\n", "('SoChr06C:35023631-35026846', 'SoChr06F:39747122-39766294') ['m84070_230525_081218_s1/162535286/ccs', 'm84072_230515_100731_s2/245238802/ccs', 'm84072_230515_100731_s2/251528746/ccs', 'm84072_230515_103837_s3/20447285/ccs', 'm84072_230515_100731_s2/78059125/ccs']\n", "('SoChr06D:36030785-36034867', 'SoChr06F:39747122-39766294') ['m84072_230515_103837_s3/98828504/ccs', 'm84072_230515_100731_s2/261558671/ccs', 'm84072_230515_103837_s3/122553542/ccs', 'm84072_230515_103837_s3/227087452/ccs', 'm84072_230515_103837_s3/80807106/ccs', 'm84072_230515_100731_s2/166004910/ccs', 'm84072_230515_100731_s2/256443205/ccs']\n", "('SoChr06E:39115833-39126082', 'SoChr06G:37110339-37118790') ['m84072_230515_103837_s3/42273232/ccs', 'm84072_230515_103837_s3/101387147/ccs', 'm84072_230515_100731_s2/179702372/ccs', 'm64292e_230406_090856/111740633/ccs', 'm64292e_230406_090856/18024240/ccs', 'm84070_230525_081218_s1/115479691/ccs', 'm84072_230515_100731_s2/17892452/ccs', 'm84072_230515_100731_s2/193466098/ccs', 'm84072_230515_100731_s2/227477991/ccs', 'm84072_230515_100731_s2/246879475/ccs', 'm84072_230515_100731_s2/265950028/ccs', 'm84072_230515_103837_s3/12061187/ccs', 'm84072_230515_103837_s3/137564818/ccs', 'm84072_230515_103837_s3/146867599/ccs', 'm84072_230515_103837_s3/63243468/ccs']\n", "('SoChr07A:16261928-16272055', 'SoChr07H:18394989-18405408') ['m84072_230515_100731_s2/32768922/ccs', 'm84072_230515_100731_s2/44960614/ccs', 'm84072_230515_100731_s2/108793989/ccs', 'm84072_230515_103837_s3/163775975/ccs', 'm84072_230515_100731_s2/170070890/ccs', 'm84072_230515_103837_s3/100729628/ccs', 'm84072_230515_100731_s2/155059876/ccs', 'm64292e_230406_090856/84609887/ccs', 'm84072_230515_100731_s2/150345069/ccs']\n", "('SoChr07D:10606031-10612359', 'SoChr07G:13114561-13127983') ['m84072_230515_100731_s2/11930265/ccs', 'm84072_230515_100731_s2/49679641/ccs', 'm84072_230515_100731_s2/82248919/ccs', 'm84072_230515_103837_s3/76943287/ccs', 'm84072_230515_103837_s3/98370997/ccs', 'm84072_230515_103837_s3/112987148/ccs']\n", "('SoChr08C:42947839-42959136', 'SoChr08E:47836297-47845109') ['m84072_230515_100731_s2/194708200/ccs', 'm84072_230515_100731_s2/196083783/ccs', 'm84072_230515_103837_s3/7275961/ccs', 'm84072_230515_103837_s3/95618797/ccs', 'm84072_230515_100731_s2/103548713/ccs', 'm84072_230515_100731_s2/134353576/ccs', 'm84072_230515_103837_s3/63111719/ccs', 'm64292e_230406_090856/74973334/ccs', 'm84072_230515_100731_s2/133300725/ccs', 'm84072_230515_103837_s3/212800579/ccs', 'm84072_230515_103837_s3/232982537/ccs', 'm84072_230515_103837_s3/36832850/ccs', 'm84072_230515_103837_s3/61280915/ccs', 'm84072_230515_103837_s3/66848870/ccs', 'm64292e_230406_090856/153223723/ccs', 'm64292e_230406_090856/162727383/ccs', 'm84070_230525_081218_s1/134616902/ccs', 'm84072_230515_100731_s2/73662567/ccs', 'm84072_230515_100731_s2/208471359/ccs', 'm84072_230515_100731_s2/148704893/ccs']\n", "('SoChr08F:41728694-41741739', 'SoChr08G:42406558-42414505') ['m84072_230515_100731_s2/239603927/ccs', 'm84072_230515_100731_s2/183109210/ccs', 'm84072_230515_100731_s2/164696068/ccs', 'm84072_230515_100731_s2/261098847/ccs', 'm84072_230515_100731_s2/50270038/ccs', 'm84072_230515_103837_s3/134220171/ccs', 'm84072_230515_103837_s3/158794542/ccs', 'm84072_230515_103837_s3/161877526/ccs', 'm84072_230515_103837_s3/188551425/ccs', 'm64292e_230406_090856/36046282/ccs']\n", "('SoChr09A:12674332-12677010', 'SoChr09D:11618805-11639176') ['m84072_230515_100731_s2/141824304/ccs', 'm84072_230515_103837_s3/146609416/ccs', 'm84072_230515_100731_s2/232328424/ccs']\n", "('SoChr09C:8260085-8268425', 'SoChr09H:9651157-9662806') ['m84072_230515_103837_s3/9047054/ccs', 'm84072_230515_100731_s2/215159984/ccs', 'm84070_230525_081218_s1/37164716/ccs', 'm84072_230515_100731_s2/52368053/ccs', 'm84072_230515_103837_s3/225777551/ccs', 'm64292e_230406_090856/60230321/ccs', 'm84072_230515_100731_s2/262275547/ccs', 'm84072_230515_100731_s2/223024348/ccs', 'm84072_230515_100731_s2/251858609/ccs', 'm84072_230515_100731_s2/23266495/ccs', 'm84072_230515_100731_s2/221054280/ccs', 'm84072_230515_103837_s3/1704677/ccs', 'm84072_230515_103837_s3/22544989/ccs', 'm84072_230515_103837_s3/248647621/ccs', 'm84072_230515_103837_s3/76222168/ccs', 'm84072_230515_103837_s3/182065045/ccs', 'm84072_230515_103837_s3/113970986/ccs', 'm84072_230515_100731_s2/210502000/ccs', 'm84072_230515_100731_s2/68160462/ccs']\n", "('SoChr09C:62527825-62530351', 'SoChr09H:60750000-60765545') ['m84070_230525_081218_s1/174788010/ccs', 'm84072_230515_103837_s3/142872618/ccs', 'm84072_230515_103837_s3/171184097/ccs', 'm64292e_230406_090856/13500459/ccs', 'm64292e_230406_090856/160041015/ccs', 'm84070_230525_081218_s1/34079772/ccs', 'm84072_230515_100731_s2/14025590/ccs', 'm84072_230515_100731_s2/46270716/ccs', 'm84072_230515_100731_s2/63834541/ccs', 'm84072_230515_103837_s3/125242654/ccs', 'm84072_230515_103837_s3/250611133/ccs', 'm64292e_230406_090856/96601282/ccs', 'm84072_230515_100731_s2/40960708/ccs', 'm84072_230515_100731_s2/66522845/ccs', 'm84072_230515_100731_s2/135009759/ccs']\n", "('SoChr09C:65686949-65691158', 'SoChr09H:60750000-60765545') ['m84072_230515_100731_s2/128976106/ccs', 'm84072_230515_103837_s3/163777482/ccs', 'm84072_230515_103837_s3/19596448/ccs']\n", "('SoChr09D:11594724-11608130', 'SoChr09F:13468031-13475179') ['m84072_230515_100731_s2/7080727/ccs', 'm84072_230515_103837_s3/102504269/ccs', 'm84072_230515_100731_s2/3412255/ccs', 'm64292e_230406_090856/36111987/ccs', 'm84072_230515_100731_s2/178263690/ccs', 'm84072_230515_100731_s2/169677754/ccs', 'm84072_230515_100731_s2/178720656/ccs', 'm84072_230515_100731_s2/201070331/ccs', 'm84072_230515_100731_s2/22810236/ccs', 'm84072_230515_100731_s2/41620655/ccs', 'm84072_230515_103837_s3/106759133/ccs', 'm84072_230515_103837_s3/25822883/ccs', 'm84072_230515_103837_s3/261624414/ccs', 'm84072_230515_103837_s3/7605745/ccs', 'm64292e_230406_090856/123928906/ccs', 'm84072_230515_100731_s2/125703403/ccs']\n", "('SoChr09F:11676148-11688046', 'SoChr09G:10145496-10156246') ['m84072_230515_103837_s3/213718016/ccs', 'm64292e_230406_090856/6818217/ccs', 'm84072_230515_103837_s3/148966399/ccs', 'm84072_230515_103837_s3/169154172/ccs', 'm84072_230515_103837_s3/71046276/ccs', 'm84072_230515_100731_s2/132519499/ccs', 'm84072_230515_103837_s3/184421132/ccs', 'm84072_230515_103837_s3/37031362/ccs', 'm84072_230515_100731_s2/85723204/ccs', 'm84072_230515_103837_s3/212664773/ccs']\n", "('SoChr10A:23992802-24005981', 'SoChr10B:27997196-28009368') ['m84070_230525_081218_s1/250746629/ccs', 'm84072_230515_103837_s3/139003364/ccs', 'm84072_230515_103837_s3/182914637/ccs', 'm84072_230515_103837_s3/246681775/ccs', 'm84072_230515_103837_s3/79695641/ccs', 'm84072_230515_103837_s3/8062994/ccs']\n", "('SoChr10A:39768937-39780658', 'SoChr10B:43423074-43431131') ['m64292e_230406_090856/131139055/ccs', 'm84070_230525_081218_s1/136582369/ccs', 'm84070_230525_081218_s1/73535371/ccs', 'm84072_230515_100731_s2/118099806/ccs', 'm84072_230515_100731_s2/9896236/ccs', 'm84072_230515_103837_s3/119996818/ccs', 'm84072_230515_103837_s3/129437658/ccs', 'm84072_230515_103837_s3/157290317/ccs', 'm84072_230515_103837_s3/178718802/ccs', 'm84072_230515_103837_s3/77926381/ccs', 'm84072_230515_103837_s3/94508383/ccs', 'm84072_230515_100731_s2/91297631/ccs', 'm84072_230515_103837_s3/13046360/ccs', 'm84072_230515_100731_s2/192152661/ccs']\n", "('SoChr10C:47361891-47369330', 'SoChr10G:44498423-44509562') ['m84072_230515_103837_s3/13570902/ccs', 'm84072_230515_100731_s2/193074387/ccs', 'm84072_230515_103837_s3/227869933/ccs', 'm84072_230515_100731_s2/122224992/ccs', 'm84072_230515_103837_s3/250874195/ccs', 'm84072_230515_103837_s3/152439659/ccs', 'm84072_230515_100731_s2/69998352/ccs', 'm84072_230515_103837_s3/135924982/ccs', 'm84070_230525_081218_s1/55906740/ccs', 'm84072_230515_100731_s2/112331425/ccs', 'm84072_230515_103837_s3/109576925/ccs']\n", "('SoChr10D:26873546-26884760', 'SoChr10H:29078426-29085680') ['m84072_230515_100731_s2/128386700/ccs', 'm84072_230515_103837_s3/166333427/ccs', 'm84072_230515_103837_s3/43843789/ccs', 'm84072_230515_103837_s3/128058286/ccs', 'm84072_230515_100731_s2/159124429/ccs', 'm64292e_230406_090856/140706502/ccs', 'm84072_230515_100731_s2/117574760/ccs', 'm84072_230515_100731_s2/122422966/ccs', 'm84072_230515_103837_s3/242159245/ccs', 'm84072_230515_103837_s3/245371777/ccs', 'm84072_230515_103837_s3/48300450/ccs', 'm84072_230515_100731_s2/194707548/ccs', 'm84072_230515_100731_s2/252906447/ccs', 'm84072_230515_100731_s2/32115867/ccs', 'm64292e_230406_090856/67569745/ccs']\n", "('SoChr10E:26576019-26582076', 'SoChr10F:24764956-24780121') ['m84072_230515_100731_s2/195891711/ccs', 'm84072_230515_103837_s3/163779070/ccs', 'm64292e_230406_090856/108857878/ccs', 'm84072_230515_100731_s2/87032928/ccs', 'm84072_230515_100731_s2/125046372/ccs', 'm84072_230515_103837_s3/93979849/ccs', 'm84072_230515_103837_s3/253758785/ccs', 'm84072_230515_103837_s3/206966673/ccs', 'm84072_230515_100731_s2/107678141/ccs', 'm64292e_230406_090856/95617075/ccs', 'm84072_230515_100731_s2/106501712/ccs', 'm84072_230515_103837_s3/217649915/ccs', 'm84072_230515_100731_s2/98307459/ccs', 'm84072_230515_103837_s3/239602174/ccs', 'm84072_230515_100731_s2/144772177/ccs']\n", "('SsChr02B:34552137-34563297', 'SsChr02H:31200625-31208862') ['m84072_230515_103837_s3/133174485/ccs', 'm84072_230515_100731_s2/145689844/ccs', 'm64292e_230406_090856/116197390/ccs', 'm84070_230525_081218_s1/68490454/ccs', 'm84072_230515_100731_s2/129635735/ccs', 'm84072_230515_100731_s2/141168118/ccs', 'm84072_230515_103837_s3/13566195/ccs', 'm84072_230515_103837_s3/176096278/ccs', 'm84072_230515_103837_s3/70060467/ccs', 'm84072_230515_103837_s3/88932477/ccs', 'm84072_230515_100731_s2/85918545/ccs', 'm84072_230515_103837_s3/134745669/ccs', 'm84072_230515_103837_s3/56099813/ccs', 'm84072_230515_103837_s3/58331038/ccs', 'm84072_230515_103837_s3/62195990/ccs', 'm84072_230515_103837_s3/17107587/ccs', 'm84072_230515_100731_s2/16124613/ccs', 'm84072_230515_103837_s3/243796635/ccs']\n", "('SsChr02B:41410571-41417749', 'SsChr02H:37220030-37231026') ['m84072_230515_100731_s2/66453836/ccs', 'm84072_230515_103837_s3/94178074/ccs', 'm84072_230515_103837_s3/174984663/ccs', 'm84072_230515_103837_s3/68752882/ccs', 'm84072_230515_100731_s2/56496569/ccs', 'm84072_230515_100731_s2/126944152/ccs', 'm64292e_230406_090856/101320504/ccs', 'm84070_230525_081218_s1/251794336/ccs', 'm84072_230515_100731_s2/178259852/ccs', 'm84072_230515_103837_s3/194511849/ccs', 'm84072_230515_100731_s2/45286190/ccs', 'm84072_230515_100731_s2/220072401/ccs', 'm84072_230515_103837_s3/227348643/ccs', 'm64292e_230406_090856/162334475/ccs', 'm84072_230515_103837_s3/28706799/ccs', 'm84072_230515_100731_s2/28117536/ccs', 'm84072_230515_103837_s3/58329843/ccs', 'm84072_230515_103837_s3/38997494/ccs']\n", "('SsChr02C:74214657-74221642', 'SsChr02E:73897851-73909786') ['m64292e_230406_090856/32638522/ccs', 'm64292e_230406_090856/55838576/ccs', 'm84072_230515_100731_s2/141953780/ccs', 'm84072_230515_100731_s2/160959782/ccs', 'm84072_230515_100731_s2/217123148/ccs', 'm84072_230515_100731_s2/218107076/ccs', 'm84072_230515_103837_s3/37620082/ccs', 'm84072_230515_103837_s3/80675995/ccs']\n", "('SsChr02D:37477353-37485256', 'SsChr02I:37821083-37830101') ['m84070_230525_081218_s1/58266037/ccs', 'm84072_230515_100731_s2/252251379/ccs', 'm64292e_230406_090856/79103493/ccs', 'm84072_230515_103837_s3/41618669/ccs', 'm84072_230515_103837_s3/234883487/ccs', 'm84070_230525_081218_s1/251592885/ccs', 'm64292e_230406_090856/165545114/ccs', 'm84072_230515_103837_s3/17631215/ccs', 'm84072_230515_103837_s3/154668019/ccs', 'm84072_230515_103837_s3/42536554/ccs', 'm84072_230515_100731_s2/59119249/ccs', 'm84072_230515_103837_s3/216008386/ccs', 'm84072_230515_100731_s2/94045047/ccs', 'm84070_230525_081218_s1/172687914/ccs', 'm84072_230515_100731_s2/218825415/ccs']\n", "('SsChr03B:78248954-78265143', 'SsChr03C:77574610-77576441') ['m84072_230515_100731_s2/21890679/ccs', 'm84072_230515_100731_s2/101257562/ccs', 'm84072_230515_103837_s3/128912621/ccs', 'm84072_230515_100731_s2/92934788/ccs', 'm84072_230515_103837_s3/181408930/ccs', 'm84072_230515_100731_s2/30214026/ccs', 'm64292e_230406_090856/92799408/ccs', 'm64292e_230406_090856/70910246/ccs']\n", "('SsChr03B:78266851-78279947', 'SsChr03C:77574610-77576441') ['m84072_230515_100731_s2/235210742/ccs', 'm84072_230515_100731_s2/255987556/ccs', 'm84072_230515_100731_s2/191694008/ccs', 'm84072_230515_100731_s2/224269693/ccs', 'm84072_230515_100731_s2/227479011/ccs', 'm84072_230515_100731_s2/34606025/ccs', 'm84072_230515_100731_s2/35264007/ccs', 'm84072_230515_100731_s2/40308230/ccs', 'm84072_230515_100731_s2/79499940/ccs', 'm84072_230515_103837_s3/116328167/ccs', 'm84072_230515_103837_s3/39851266/ccs', 'm84072_230515_103837_s3/58266823/ccs', 'm84070_230525_081218_s1/216927817/ccs', 'm84072_230515_100731_s2/48498549/ccs', 'm84072_230515_103837_s3/207162522/ccs']\n", "('SsChr04C:68170643-68180271', 'SsChr04H:62501527-62509139') ['m84072_230515_100731_s2/205586880/ccs', 'm84072_230515_100731_s2/35264150/ccs', 'm84072_230515_103837_s3/262801489/ccs', 'm84072_230515_103837_s3/234624850/ccs', 'm64292e_230406_090856/66259490/ccs', 'm84070_230525_081218_s1/25430900/ccs', 'm84072_230515_103837_s3/181997680/ccs', 'm84072_230515_103837_s3/47715842/ccs', 'm64292e_230406_090856/10029292/ccs', 'm84072_230515_100731_s2/193855537/ccs', 'm84072_230515_100731_s2/114756577/ccs', 'm84072_230515_103837_s3/224334463/ccs', 'm84072_230515_103837_s3/101188013/ccs', 'm84072_230515_103837_s3/111608033/ccs', 'm84072_230515_103837_s3/20385735/ccs', 'm84072_230515_103837_s3/33882414/ccs', 'm64292e_230406_090856/13371223/ccs', 'm84070_230525_081218_s1/144114608/ccs', 'm84072_230515_100731_s2/132254914/ccs', 'm84072_230515_103837_s3/233838458/ccs', 'm84072_230515_100731_s2/52367078/ccs', 'm64292e_230406_090856/27329807/ccs', 'm84072_230515_103837_s3/229573549/ccs', 'm84072_230515_100731_s2/162926128/ccs']\n", "('SsChr04D:15692446-15704499', 'SsChr04G:14348963-14355757') ['m84072_230515_103837_s3/238880896/ccs', 'm84072_230515_100731_s2/95685827/ccs', 'm84072_230515_100731_s2/167447184/ccs', 'm84072_230515_103837_s3/74057752/ccs', 'm84072_230515_100731_s2/101515541/ccs', 'm84072_230515_103837_s3/178524172/ccs', 'm64292e_230406_090856/8520168/ccs', 'm64292e_230406_090856/128125746/ccs', 'm84072_230515_103837_s3/170528839/ccs', 'm84072_230515_100731_s2/243337053/ccs', 'm84072_230515_100731_s2/58985964/ccs', 'm84072_230515_100731_s2/250414401/ccs']\n", "('SsChr04E:22682002-22688453', 'SsChr04I:21931503-21945219') ['m84072_230515_100731_s2/201655499/ccs', 'm84072_230515_100731_s2/76682063/ccs', 'm64292e_230406_090856/6096922/ccs', 'm64292e_230406_090856/82707583/ccs', 'm84072_230515_100731_s2/170463151/ccs', 'm84072_230515_103837_s3/126551611/ccs', 'm84072_230515_103837_s3/159848179/ccs', 'm84072_230515_103837_s3/63508971/ccs', 'm84072_230515_103837_s3/65277358/ccs', 'm84072_230515_103837_s3/94835165/ccs', 'm84072_230515_100731_s2/60162461/ccs']\n", "('SsChr04F:56395982-56406704', 'SsChr04J:55509323-55517629') ['m84072_230515_100731_s2/137565518/ccs', 'm84072_230515_103837_s3/182455834/ccs', 'm84072_230515_103837_s3/4587903/ccs', 'm84072_230515_103837_s3/24776551/ccs', 'm84072_230515_100731_s2/224920716/ccs', 'm84072_230515_100731_s2/249627202/ccs', 'm64292e_230406_090856/87818404/ccs', 'm84072_230515_103837_s3/167121873/ccs', 'm64292e_230406_090856/77989296/ccs', 'm84072_230515_100731_s2/156698463/ccs', 'm84070_230525_081218_s1/84609661/ccs', 'm64292e_230406_090856/35915562/ccs', 'm84072_230515_100731_s2/243401797/ccs', 'm84072_230515_103837_s3/51975048/ccs', 'm84072_230515_100731_s2/94109799/ccs', 'm84072_230515_103837_s3/76878075/ccs', 'm84072_230515_100731_s2/241046411/ccs', 'm84072_230515_100731_s2/19727483/ccs', 'm84072_230515_103837_s3/61347317/ccs', 'm84072_230515_100731_s2/112919399/ccs', 'm84072_230515_103837_s3/59835060/ccs', 'm84072_230515_100731_s2/61999914/ccs', 'm84072_230515_103837_s3/77726959/ccs', 'm84072_230515_100731_s2/22151905/ccs', 'm84072_230515_100731_s2/11601379/ccs', 'm84072_230515_103837_s3/64491782/ccs', 'm84072_230515_100731_s2/246090245/ccs', 'm84072_230515_100731_s2/247074730/ccs', 'm84072_230515_103837_s3/87754310/ccs']\n", "('SsChr05A:21950540-21959347', 'SsChr05G:22737896-22747917') ['m84072_230515_103837_s3/243994029/ccs', 'm84070_230525_081218_s1/94508335/ccs', 'm84072_230515_100731_s2/221970613/ccs', 'm64292e_230406_090856/44368245/ccs', 'm84072_230515_100731_s2/184615438/ccs', 'm84072_230515_100731_s2/159648323/ccs', 'm84072_230515_103837_s3/106632425/ccs', 'm84072_230515_100731_s2/161613825/ccs', 'm64292e_230406_090856/78579681/ccs', 'm84070_230525_081218_s1/162794456/ccs', 'm84072_230515_100731_s2/92932123/ccs', 'm84072_230515_100731_s2/7930637/ccs', 'm84072_230515_103837_s3/198251625/ccs', 'm84072_230515_100731_s2/20645353/ccs', 'm84072_230515_103837_s3/179244056/ccs', 'm64292e_230406_090856/15796419/ccs', 'm84072_230515_100731_s2/175771342/ccs', 'm84072_230515_103837_s3/137106312/ccs', 'm84072_230515_103837_s3/248119872/ccs', 'm84072_230515_103837_s3/139269354/ccs', 'm84072_230515_100731_s2/165479892/ccs', 'm84072_230515_100731_s2/139266578/ccs', 'm84072_230515_103837_s3/197067923/ccs', 'm84072_230515_103837_s3/197722507/ccs', 'm84072_230515_100731_s2/176099522/ccs', 'm84072_230515_103837_s3/255725527/ccs', 'm84070_230525_081218_s1/10749027/ccs']\n", "('SsChr05A:57121364-57135183', 'SsChr05G:60254195-60261891') ['m84072_230515_100731_s2/187502792/ccs', 'm84072_230515_100731_s2/184484854/ccs', 'm84072_230515_100731_s2/88346573/ccs', 'm64292e_230406_090856/165284353/ccs', 'm84072_230515_100731_s2/187499294/ccs', 'm84072_230515_100731_s2/236984101/ccs', 'm64292e_230406_090856/167315918/ccs', 'm64292e_230406_090856/25824040/ccs', 'm84070_230525_081218_s1/46797704/ccs', 'm84072_230515_100731_s2/233772715/ccs', 'm84072_230515_100731_s2/26937574/ccs', 'm84072_230515_100731_s2/73273043/ccs', 'm84072_230515_103837_s3/24642290/ccs', 'm84072_230515_103837_s3/251265190/ccs']\n", "('SsChr05B:33407491-33415277', 'SsChr05J:28132946-28142752') ['m64292e_230406_090856/54135360/ccs', 'm64292e_230406_090856/8587145/ccs', 'm84070_230525_081218_s1/140575763/ccs', 'm84072_230515_103837_s3/106370364/ccs', 'm84072_230515_103837_s3/183763591/ccs', 'm84072_230515_103837_s3/239801154/ccs', 'm84072_230515_103837_s3/59966578/ccs', 'm84072_230515_103837_s3/67371736/ccs', 'm84072_230515_100731_s2/155061501/ccs', 'm64292e_230406_090856/139788692/ccs']\n", "('SsChr05C:22114043-22122290', 'SsChr05E:20054841-20066387') ['m84072_230515_103837_s3/104926999/ccs', 'm84072_230515_103837_s3/230954772/ccs', 'm84072_230515_100731_s2/186386536/ccs', 'm64292e_230406_090856/12911520/ccs', 'm84072_230515_100731_s2/61673587/ccs', 'm84072_230515_103837_s3/71766536/ccs']\n", "('SsChr05D:54590337-54599904', 'SsChr05F:52148216-52156816') ['m84072_230515_100731_s2/2362062/ccs', 'm84072_230515_100731_s2/216471185/ccs', 'm84072_230515_100731_s2/26938550/ccs', 'm64292e_230406_090856/120523235/ccs', 'm64292e_230406_090856/169083339/ccs', 'm84072_230515_100731_s2/106697882/ccs', 'm84072_230515_100731_s2/140906733/ccs', 'm84072_230515_100731_s2/172229891/ccs', 'm84072_230515_100731_s2/19402628/ccs', 'm84072_230515_100731_s2/237636061/ccs', 'm84072_230515_100731_s2/246484995/ccs', 'm84072_230515_100731_s2/252253819/ccs', 'm84072_230515_100731_s2/84871868/ccs', 'm84072_230515_103837_s3/103027774/ccs', 'm84072_230515_103837_s3/128188612/ccs', 'm84072_230515_103837_s3/171639694/ccs', 'm84072_230515_103837_s3/33424251/ccs', 'm84072_230515_103837_s3/65277492/ccs', 'm84072_230515_103837_s3/56432563/ccs', 'm64292e_230406_090856/159581754/ccs']\n", "('SsChr06D:17877920-17887384', 'SsChr06F:20196086-20209578') ['m84072_230515_103837_s3/39125852/ccs', 'm84072_230515_100731_s2/232718619/ccs', 'm84070_230525_081218_s1/91297402/ccs', 'm84072_230515_103837_s3/49614056/ccs', 'm84072_230515_100731_s2/18941351/ccs', 'm84070_230525_081218_s1/244649661/ccs', 'm84072_230515_100731_s2/150606584/ccs', 'm64292e_230406_090856/117836205/ccs', 'm84072_230515_103837_s3/100931253/ccs', 'm64292e_230406_090856/119210675/ccs', 'm84072_230515_100731_s2/185930559/ccs']\n", "('SsChr07C:47511618-47522344', 'SsChr07D:47397514-47406107') ['m84072_230515_100731_s2/114885543/ccs', 'm84072_230515_100731_s2/234816701/ccs', 'm84072_230515_100731_s2/10356002/ccs', 'm84072_230515_103837_s3/165479497/ccs', 'm84072_230515_100731_s2/251596303/ccs', 'm84072_230515_103837_s3/185337439/ccs', 'm84072_230515_103837_s3/127274152/ccs']\n", "('SsChr08F:49839092-49850511', 'SsChr08H:49538079-49543905') ['m84072_230515_100731_s2/212997466/ccs', 'm84072_230515_103837_s3/258478417/ccs', 'm84072_230515_100731_s2/102371060/ccs', 'm84072_230515_103837_s3/53939911/ccs', 'm64292e_230406_090856/134349075/ccs', 'm84072_230515_103837_s3/88017024/ccs', 'm84072_230515_100731_s2/205194652/ccs', 'm84072_230515_100731_s2/207820062/ccs', 'm84070_230525_081218_s1/47579489/ccs']\n" ] } ], "source": [ "for pair, reads in pair_to_reads.items():\n", " if len(reads) < 3:\n", " continue\n", " print(pair, reads)" ] } ], "metadata": { "kernelspec": { "display_name": "base", "language": "python", "name": "python3" }, "language_info": { "codemirror_mode": { "name": "ipython", "version": 3 }, "file_extension": ".py", "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", "version": "3.10.6" } }, "nbformat": 4, "nbformat_minor": 2 }