BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524851.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 = 400,709 number of mapped reads = 369,047 (92.1%) number of supplementary alignments = 2,447 (0.61%) number of secondary alignments = 0 number of mapped bases = 21,710,225 bp number of sequenced bases = 21,703,934 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,287 duplication rate = 1.04% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.475 >>>>>>> ACTG content number of A's = 5,538,421 bp (25.52%) number of C's = 4,234,717 bp (19.51%) number of T's = 6,718,300 bp (30.95%) number of G's = 5,209,476 bp (24%) number of N's = 3,020 bp (0.01%) GC percentage = 43.51% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 103,179 number of insertions = 1,254 mapped reads with insertion percentage = 0.34% number of deletions = 3,957 mapped reads with deletion percentage = 1.07% homopolymer indels = 44.96% >>>>>>> Coverage mean coverageData = 0.007X std coverageData = 0.1014X There is a 0.67% of reference with a coverageData >= 1X There is a 0.02% 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 1822727 0.007312828319894136 0.15700336687219968 chr2 243199373 1396646 0.005742802634610411 0.10145804993093732 chr3 198022430 1523396 0.007693047701717427 0.08928242858215377 chr4 191154276 1157024 0.006052828240159273 0.08135447886880454 chr5 180915260 1284285 0.007098820740715847 0.085920715775674 chr6 171115067 1415282 0.008270937357024206 0.09539212316110311 chr7 159138663 996993 0.006264932614144182 0.11601048475384503 chr8 146364022 2319623 0.015848314143758636 0.1447482466999336 chr9 141213431 906411 0.006418730807553285 0.09275964170184955 chr10 135534747 1095545 0.008083130151119108 0.10306429396650828 chr11 135006516 1039278 0.007697983999527845 0.09856610894832847 chr12 133851895 871890 0.0065138412870434145 0.08295823552531108 chr13 115169878 557329 0.004839190677965293 0.07077118844132607 chr14 107349540 449932 0.004191280186202941 0.06717468825253123 chr15 102531392 657389 0.006411587584805247 0.08168048238780302 chr16 90354753 645044 0.007139015697381188 0.08795749832883847 chr17 81195210 632674 0.007792011376040533 0.09350460832729189 chr18 78077248 530150 0.006790070264771627 0.12480522376559114 chr19 59128983 355528 0.006012753508715007 0.11023621574857691 chr20 63025520 481334 0.007637128579026401 0.0892448943533898 chr21 48129895 313697 0.006517716275923727 0.08315265127945853 chr22 51304566 136981 0.0026699572899612873 0.052465160439554334 chrMT 16571 3470 0.20940196729225755 0.48604904830051676 chrX 155270560 1063070 0.006846565118332799 0.08699297873497017 chrY 59373566 54527 9.183716538097105E-4 0.03767383683407416