BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524555.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 = 915,763 number of mapped reads = 841,416 (91.88%) number of supplementary alignments = 3,001 (0.33%) number of secondary alignments = 0 number of mapped bases = 48,748,793 bp number of sequenced bases = 48,736,219 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 15,547 duplication rate = 1.32% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.275 >>>>>>> ACTG content number of A's = 11,970,386 bp (24.56%) number of C's = 8,834,348 bp (18.13%) number of T's = 15,791,726 bp (32.4%) number of G's = 12,138,309 bp (24.91%) number of N's = 1,450 bp (0%) GC percentage = 43.03% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 234,420 number of insertions = 3,258 mapped reads with insertion percentage = 0.38% number of deletions = 7,480 mapped reads with deletion percentage = 0.88% homopolymer indels = 41.37% >>>>>>> Coverage mean coverageData = 0.0157X std coverageData = 0.1613X There is a 1.48% of reference with a coverageData >= 1X There is a 0.07% of reference with a coverageData >= 2X There is a 0.01% 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 3667143 0.014712673474141515 0.23416618493619412 chr2 243199373 4084180 0.016793546585335974 0.17886779107266357 chr3 198022430 2956819 0.014931737783442006 0.1271246615624791 chr4 191154276 3063875 0.016028283876840924 0.14047510380584305 chr5 180915260 2661395 0.014710727000033055 0.12720545770887964 chr6 171115067 2535443 0.014817181470057221 0.13278044107772582 chr7 159138663 3033261 0.01906049066153082 0.20009586027879123 chr8 146364022 2064168 0.01410297402185354 0.15062674292176906 chr9 141213431 2196205 0.015552380424777017 0.16070276788768972 chr10 135534747 1829014 0.013494797758393278 0.15745276906713251 chr11 135006516 1863187 0.01380071907047805 0.13745972703031417 chr12 133851895 3499108 0.026141639608464266 0.17905878624909904 chr13 115169878 1767685 0.015348501107207911 0.12871139141423552 chr14 107349540 1783136 0.016610560231557582 0.13936037825598763 chr15 102531392 1186551 0.011572563064393 0.11176838432693263 chr16 90354753 1494703 0.0165426051244919 0.14042252980551884 chr17 81195210 1488873 0.018336956083985743 0.14339929911122837 chr18 78077248 1540818 0.01973453265156067 0.2621414136042517 chr19 59128983 837428 0.014162733020454623 0.18938844647207748 chr20 63025520 1456307 0.023106624110360376 0.16132414478536053 chr21 48129895 592382 0.012307984465787843 0.1239892674889437 chr22 51304566 470316 0.009167137287546687 0.0993224177418273 chrMT 16571 9577 0.5779373604489771 0.8154211052486082 chrX 155270560 2527259 0.016276485381388463 0.14313561507318026 chrY 59373566 139960 0.0023572779846169254 0.06620897227783054