BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524930.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 548,404 number of mapped reads = 507,639 (92.57%) number of supplementary alignments = 2,130 (0.39%) number of secondary alignments = 0 number of mapped bases = 29,706,910 bp number of sequenced bases = 29,698,115 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,146 duplication rate = 2.08% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1223 >>>>>>> ACTG content number of A's = 7,628,767 bp (25.69%) number of C's = 5,609,233 bp (18.89%) number of T's = 9,041,854 bp (30.45%) number of G's = 7,418,018 bp (24.98%) number of N's = 243 bp (0%) GC percentage = 43.87% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 145,376 number of insertions = 2,153 mapped reads with insertion percentage = 0.42% number of deletions = 5,264 mapped reads with deletion percentage = 1.03% homopolymer indels = 42.15% >>>>>>> Coverage mean coverageData = 0.0096X std coverageData = 0.1214X There is a 0.9% of reference with a coverageData >= 1X There is a 0.04% of reference with a coverageData >= 2X There is a 0% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 2868707 0.011509327393009786 0.19134476990268295 chr2 243199373 2691505 0.01106707211782162 0.14063585604021797 chr3 198022430 1905038 0.009620314223999777 0.10280704307593928 chr4 191154276 1309396 0.006849943550308025 0.09563343074598422 chr5 180915260 1798931 0.009943500620124583 0.1043087362187661 chr6 171115067 1885768 0.011020467297599224 0.11144131371341774 chr7 159138663 1704568 0.010711212271527002 0.13339083881791272 chr8 146364022 2594312 0.017725066341781726 0.16022691902508734 chr9 141213431 1052294 0.007451798264146702 0.0994241350384875 chr10 135534747 1310239 0.009667181508812643 0.12511326627303362 chr11 135006516 1806239 0.013378902393125973 0.12652694400480105 chr12 133851895 988532 0.007385267126774709 0.09063817401984585 chr13 115169878 720792 0.006258511448627218 0.08294400059569668 chr14 107349540 548813 0.005112392656736116 0.07547233207783327 chr15 102531392 781595 0.007622982432541245 0.09106770552928703 chr16 90354753 899346 0.009953499623865941 0.10759657008916651 chr17 81195210 621876 0.007659023235483965 0.0931706754986589 chr18 78077248 798709 0.010229727871556129 0.14404151280965083 chr19 59128983 601413 0.010171204872574927 0.14851482079167863 chr20 63025520 566977 0.00899599083038109 0.10022141800426285 chr21 48129895 281632 0.005851498325520968 0.08657003588274831 chr22 51304566 524855 0.010230181071992696 0.10629273236775237 chrMT 16571 1428 0.08617464244764951 0.30267598980553184 chrX 155270560 1355222 0.008728132364564151 0.10110492132406955 chrY 59373566 88723 0.0014943181954070268 0.0662455933185179