BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524929.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 = 710,203 number of mapped reads = 659,069 (92.8%) number of supplementary alignments = 2,492 (0.35%) number of secondary alignments = 0 number of mapped bases = 38,321,840 bp number of sequenced bases = 38,309,724 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 20,177 duplication rate = 2.41% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7837 >>>>>>> ACTG content number of A's = 9,399,262 bp (24.53%) number of C's = 6,875,567 bp (17.95%) number of T's = 11,998,141 bp (31.32%) number of G's = 10,036,432 bp (26.2%) number of N's = 322 bp (0%) GC percentage = 44.15% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 190,149 number of insertions = 2,474 mapped reads with insertion percentage = 0.37% number of deletions = 7,259 mapped reads with deletion percentage = 1.09% homopolymer indels = 43.73% >>>>>>> Coverage mean coverageData = 0.0124X std coverageData = 0.1447X There is a 1.15% 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 3743170 0.015017695783393856 0.23705988565226244 chr2 243199373 3380664 0.013900792416927819 0.16862326505707215 chr3 198022430 2339479 0.01181421215768335 0.11493054527789688 chr4 191154276 1690596 0.008844144297352783 0.11481938582328834 chr5 180915260 2330653 0.0128825672306471 0.11995361679455709 chr6 171115067 2518711 0.014719399315081939 0.13248644473490984 chr7 159138663 2279234 0.014322314621934458 0.16070598186539353 chr8 146364022 3236922 0.02211555787938104 0.18522986867041202 chr9 141213431 1389797 0.009841818799799574 0.11823907106477631 chr10 135534747 1627834 0.012010455149187685 0.14912728262350866 chr11 135006516 2350453 0.01740992264403001 0.15081540891434414 chr12 133851895 1257560 0.009395160225411826 0.10475404337284412 chr13 115169878 942892 0.008186967081791995 0.09614471241440506 chr14 107349540 723754 0.006742031684532602 0.08829973998027962 chr15 102531392 996975 0.009723607380654697 0.10407092158679472 chr16 90354753 1132681 0.012535931563002558 0.12212167242798573 chr17 81195210 889258 0.010952099267924795 0.11279604865154982 chr18 78077248 1006183 0.01288701927608924 0.18339778740976395 chr19 59128983 838415 0.014179425342052644 0.17470807112740658 chr20 63025520 734358 0.011651756304430333 0.11514581066493315 chr21 48129895 337832 0.007019171764243408 0.10257042353289944 chr22 51304566 731074 0.014249686860229946 0.12693156884509077 chrMT 16571 3441 0.20765192203246635 0.5185863987933682 chrX 155270560 1728088 0.011129527709567094 0.11621757254052995 chrY 59373566 111816 0.001883262325864005 0.08034461921950563