BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524923.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 = 771,952 number of mapped reads = 702,379 (90.99%) number of supplementary alignments = 2,940 (0.38%) number of secondary alignments = 0 number of mapped bases = 40,221,592 bp number of sequenced bases = 40,206,365 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 34,831 duplication rate = 4.05% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.4627 >>>>>>> ACTG content number of A's = 9,715,603 bp (24.16%) number of C's = 7,815,258 bp (19.44%) number of T's = 12,659,564 bp (31.49%) number of G's = 10,015,631 bp (24.91%) number of N's = 309 bp (0%) GC percentage = 44.35% >>>>>>> Mismatches and indels general error rate = 0.0056 number of mismatches = 218,521 number of insertions = 2,351 mapped reads with insertion percentage = 0.33% number of deletions = 9,054 mapped reads with deletion percentage = 1.28% homopolymer indels = 42.42% >>>>>>> Coverage mean coverageData = 0.013X std coverageData = 0.1531X There is a 1.15% of reference with a coverageData >= 1X There is a 0.11% of reference with a coverageData >= 2X There is a 0.02% 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 3951713 0.015854375744965545 0.22161183646685337 chr2 243199373 3620068 0.014885186402186983 0.19629740210951313 chr3 198022430 2557211 0.01291374416524431 0.12638997382886916 chr4 191154276 1873793 0.009802516790155404 0.12813908405160174 chr5 180915260 2493147 0.013780744642547013 0.12939366010346753 chr6 171115067 2602033 0.015206334810949173 0.14160161349931735 chr7 159138663 2434002 0.015294850127024128 0.17675822986707423 chr8 146364022 3481622 0.023787416828433425 0.20184994947599924 chr9 141213431 1453104 0.010290126014996407 0.12615262824146725 chr10 135534747 1766333 0.013032325946644515 0.17795434216990766 chr11 135006516 2057813 0.015242323563108614 0.1468076444925763 chr12 133851895 1339625 0.010008263237513372 0.1130107021865881 chr13 115169878 1005580 0.008731276072029876 0.10353643093610106 chr14 107349540 733926 0.0068367875633188555 0.09241085793223547 chr15 102531392 1030248 0.010048122627653392 0.11085117405459806 chr16 90354753 1207763 0.013366900576884982 0.13295037470242324 chr17 81195210 894638 0.011018359334251368 0.11870837148294897 chr18 78077248 1067192 0.01366841208337671 0.1806599037023577 chr19 59128983 830326 0.014042622718540584 0.17803127139583713 chr20 63025520 744856 0.011818323752029337 0.12414878126237198 chr21 48129895 373200 0.007754016500555424 0.11217504280887661 chr22 51304566 743681 0.014495415476275543 0.13422992467780528 chrMT 16571 4202 0.25357552350491824 0.6229413939859013 chrX 155270560 1823644 0.011744943793594871 0.12470093873649431 chrY 59373566 131872 0.0022210557472663846 0.09670059278027475