{ "cells": [ { "cell_type": "code", "execution_count": 241, "metadata": {}, "outputs": [], "source": [ "BedFdir_specie=\"/cellar/users/btsui/Data/ucsc_chains_human_homo_snps/hg38ToDanRer10.over.chain.gz.human_homo.bed\"" ] }, { "cell_type": "code", "execution_count": 242, "metadata": {}, "outputs": [], "source": [ "FastaFDir='/cellar/users/btsui/Data/ensembl/clean/Danio_rerio.fa'" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "#### get SNPs" ] }, { "cell_type": "code", "execution_count": 243, "metadata": {}, "outputs": [], "source": [ "import pandas as pd" ] }, { "cell_type": "code", "execution_count": 244, "metadata": {}, "outputs": [], "source": [ "tmpDf=pd.read_csv(BedFdir_specie,sep='\\t',header=None)\n", "\n", "tmpDf.columns=['Chr','Start','End','Rs','','Strand']\n", "\n", "tmpDf['Chr']=tmpDf['Chr'].str.replace('chr','').str.replace('M','MT')\n", "#tmpDf['Start']+=1\n", "#tmpDf['End']+=1" ] }, { "cell_type": "code", "execution_count": 245, "metadata": {}, "outputs": [], "source": [ "tmpDf_sub=tmpDf[['Chr','Start','End','Rs','','Strand']]" ] }, { "cell_type": "code", "execution_count": 246, "metadata": {}, "outputs": [], "source": [ "tmpDf_sub.to_csv('tmp.bed',index=None,header=None,sep='\\t')" ] }, { "cell_type": "code", "execution_count": 247, "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149710v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149710v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149858v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149858v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149978v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149934v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149934v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149763v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150394v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150394v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150394v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150487v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149797v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149772v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149830v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149830v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149830v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149976v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149976v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149976v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149976v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149976v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149976v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150264v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150188v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149710v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149710v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149763v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150320v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150320v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150320v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150320v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150320v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150320v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150320v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150017v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150361v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150361v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150361v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150361v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150361v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150361v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150361v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150123v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150183v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "WARNING. chromosome (Un_KN150698v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150088v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150698v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150239v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150239v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149781v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149878v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149878v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149878v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149878v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149878v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149878v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149878v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149878v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149785v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150495v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150158v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150158v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149818v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150171v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150249v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150249v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150267v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150267v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150267v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150229v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150015v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149695v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150402v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150402v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150402v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150402v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150402v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150402v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150402v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150612v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150707v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149815v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150443v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150443v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150425v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149707v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150596v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150207v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150129v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150614v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150614v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150676v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150265v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150265v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150642v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150642v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150642v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150642v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150642v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150642v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150642v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150668v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150170v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150468v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150658v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149698v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150449v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150164v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149830v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150118v1) was not found in the FASTA file. Skipping.\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "WARNING. chromosome (Un_KN150241v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150241v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150133v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149749v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150267v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150267v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150069v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150559v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150559v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150562v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150080v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150080v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150449v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150449v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150559v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150149v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150149v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150134v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149704v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150531v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150408v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150230v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150230v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150230v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150230v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150230v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150230v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150230v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150230v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150214v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150214v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149877v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150529v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150652v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150000v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149959v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149959v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150491v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150491v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150491v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150491v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150491v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150491v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150491v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150491v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149764v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150339v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150037v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150037v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150037v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150130v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150130v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149782v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150049v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150049v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149906v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149948v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150552v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150079v1) was not found in the FASTA file. Skipping.\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150543v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149763v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150147v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150147v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150147v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150147v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150147v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150147v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150147v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150147v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150147v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150353v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150681v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150600v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150052v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150376v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150531v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150030v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150185v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150469v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149690v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149690v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149690v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149690v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150368v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150435v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150435v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150191v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150476v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149763v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150617v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150487v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150487v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150487v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150487v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150008v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150013v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150620v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150620v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150189v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150142v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149739v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149739v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149830v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150691v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150691v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150293v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150702v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149743v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150191v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149987v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150076v1) was not found in the FASTA file. Skipping.\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "WARNING. chromosome (Un_KN149966v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149763v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150474v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149962v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150001v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150001v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150001v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149910v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149948v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150438v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150438v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150438v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150438v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150026v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150026v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149799v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149742v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149874v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149874v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149874v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149874v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149874v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149874v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149874v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149874v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149874v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150470v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149975v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150356v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150356v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150356v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150356v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150363v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150326v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150493v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150493v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149919v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150056v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149776v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149776v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149776v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149776v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149776v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149776v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150342v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150416v1) was not found in the FASTA file. Skipping.\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "WARNING. chromosome (Un_KN149987v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150460v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150460v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149855v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150055v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150183v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149861v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150183v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150238v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150487v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150191v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150191v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150351v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149818v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150708v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150708v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150559v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149968v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149968v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149968v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149968v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149968v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150450v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149987v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149859v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149859v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150394v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150394v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150394v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150394v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150394v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150394v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150493v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150600v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150600v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150600v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150663v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150600v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149842v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150432v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150432v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150148v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149797v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149797v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149797v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150191v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150079v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149830v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150674v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150674v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150674v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150674v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150674v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150019v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149987v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149987v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149987v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149987v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149987v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150330v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149984v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149984v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149984v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149984v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149984v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149984v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149687v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150016v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150016v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150487v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150487v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150487v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150332v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149696v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149696v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149696v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN149984v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150003v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150003v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150003v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150165v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n", "WARNING. chromosome (Un_KN150021v1) was not found in the FASTA file. Skipping.\n" ] } ], "source": [ "!bedtools getfasta -name -fi $FastaFDir -bed tmp.bed -s -fo specie.snp.plus.fasta\n" ] }, { "cell_type": "code", "execution_count": 248, "metadata": {}, "outputs": [], "source": [ "#!head specie.snp.plus.fasta" ] }, { "cell_type": "code", "execution_count": 249, "metadata": {}, "outputs": [], "source": [ "#extractedDf" ] }, { "cell_type": "code", "execution_count": 250, "metadata": {}, "outputs": [], "source": [ "tmpS=pd.read_csv('specie.snp.plus.fasta',header=None)[0]\n", "\n", "extractedDf=pd.DataFrame({'Loc':tmpS[(tmpS.index%2)==0].values,\n", " 'Nucleotide':tmpS[(tmpS.index%2)==1].values})\n", "\n", "extractedDf['Rs']=extractedDf['Loc'].str.extract('^>(rs\\d+)',expand=False)\n", "extractedDf['Strand']=extractedDf['Loc'].str.extract('^>rs\\d+\\(([+-])\\)',expand=False)\n", "rsToNucleotideS=extractedDf.set_index('Rs')['Nucleotide']" ] }, { "cell_type": "code", "execution_count": 251, "metadata": {}, "outputs": [], "source": [ "#extractedDf['Strand']" ] }, { "cell_type": "code", "execution_count": 252, "metadata": {}, "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "/cellar/users/btsui/anaconda3/lib/python3.6/site-packages/IPython/core/interactiveshell.py:2785: DtypeWarning: Columns (0) have mixed types. Specify dtype option on import or set low_memory=False.\n", " interactivity=interactivity, compiler=compiler, result=result)\n" ] } ], "source": [ "import re\n", "\n", "pattern='VP=0x\\d{4}(\\d{2})'\n", "prog = re.compile(pattern)\n", "inDbDir='/data/cellardata/users/btsui/dbsnp/Homo_sapiens/All_20170710.vcf.gz'\n", "outDbDir=inDbDir.replace('.vcf.gz','.f1_byte2_not_00.vcf.gz')\n", "humanDf=pd.read_csv(outDbDir,sep='\\t',header=None)\n", "humanDf.columns=['Chr','Loc','rs','REF','ALT','','','Annot']" ] }, { "cell_type": "code", "execution_count": 253, "metadata": {}, "outputs": [], "source": [ "#rsToNucleotideS" ] }, { "cell_type": "code", "execution_count": 254, "metadata": {}, "outputs": [], "source": [ "humanDf['Mouse_ref']=rsToNucleotideS[humanDf.rs].values" ] }, { "cell_type": "code", "execution_count": 255, "metadata": {}, "outputs": [], "source": [ "m=humanDf.Mouse_ref.isin(['A','C','G','T'])&humanDf.REF.isin(['A','C','G','T'])" ] }, { "cell_type": "code", "execution_count": 264, "metadata": {}, "outputs": [], "source": [ "#humanDf" ] }, { "cell_type": "code", "execution_count": 256, "metadata": { "scrolled": true }, "outputs": [], "source": [ "continDf=humanDf[humanDf.REF.str.len()==1].groupby(['REF','Mouse_ref']).size().unstack()[['A','C','G','T']]" ] }, { "cell_type": "code", "execution_count": 257, "metadata": {}, "outputs": [], "source": [ "humanDf_sub=humanDf[m]" ] }, { "cell_type": "code", "execution_count": 265, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "81210" ] }, "execution_count": 265, "metadata": {}, "output_type": "execute_result" } ], "source": [ "(humanDf_sub.REF==humanDf_sub.Mouse_ref).sum()" ] }, { "cell_type": "code", "execution_count": 266, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "C 37359\n", "G 37030\n", "T 29018\n", "A 28920\n", "N 4232\n", "Name: Mouse_ref, dtype: int64" ] }, "execution_count": 266, "metadata": {}, "output_type": "execute_result" } ], "source": [ "humanDf.Mouse_ref.value_counts()" ] }, { "cell_type": "code", "execution_count": 267, "metadata": {}, "outputs": [ { "data": { "text/plain": [ "0.6750960147638286" ] }, "execution_count": 267, "metadata": {}, "output_type": "execute_result" } ], "source": [ "(humanDf_sub.REF==humanDf_sub.Mouse_ref).mean()\n", "#0.725" ] }, { "cell_type": "code", "execution_count": 268, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
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Mouse_refACGT
REF
A0.5351130.0421830.0852110.060913
C0.1587120.7851670.0911140.245426
G0.2453100.0870560.7828820.166023
T0.0608650.0855940.0407940.527638
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" ], "text/plain": [ "Mouse_ref A C G T\n", "REF \n", "A 0.535113 0.042183 0.085211 0.060913\n", "C 0.158712 0.785167 0.091114 0.245426\n", "G 0.245310 0.087056 0.782882 0.166023\n", "T 0.060865 0.085594 0.040794 0.527638" ] }, "execution_count": 268, "metadata": {}, "output_type": "execute_result" } ], "source": [ "continDf/continDf.sum(axis=0)" ] }, { "cell_type": "code", "execution_count": 174, "metadata": {}, "outputs": [], "source": [ "#humanDf" ] }, { "cell_type": "code", "execution_count": null, "metadata": {}, "outputs": [], "source": [ "#0.718" ] }, { "cell_type": "code", "execution_count": null, "metadata": {}, "outputs": [], "source": [] }, { "cell_type": "code", "execution_count": null, "metadata": {}, "outputs": [], "source": [] }, { "cell_type": "code", "execution_count": null, "metadata": {}, "outputs": [], "source": [] } ], "metadata": { "kernelspec": { "display_name": "Python [conda root]", "language": "python", "name": "conda-root-py" }, "language_info": { "codemirror_mode": { "name": "ipython", "version": 3 }, "file_extension": ".py", "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", "version": "3.6.5" } }, "nbformat": 4, "nbformat_minor": 2 }