BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524371.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 = 617,007 number of mapped reads = 563,275 (91.29%) number of supplementary alignments = 2,625 (0.43%) number of secondary alignments = 0 number of mapped bases = 33,113,297 bp number of sequenced bases = 33,104,158 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,930 duplication rate = 1.85% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2763 >>>>>>> ACTG content number of A's = 8,502,561 bp (25.68%) number of C's = 6,035,679 bp (18.23%) number of T's = 10,269,969 bp (31.02%) number of G's = 8,291,177 bp (25.05%) number of N's = 4,772 bp (0.01%) GC percentage = 43.28% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 169,135 number of insertions = 2,403 mapped reads with insertion percentage = 0.42% number of deletions = 5,973 mapped reads with deletion percentage = 1.05% homopolymer indels = 42.08% >>>>>>> Coverage mean coverageData = 0.0107X std coverageData = 0.1348X There is a 1% of reference with a coverageData >= 1X There is a 0.05% 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 2649190 0.01062861945687991 0.2154709006508846 chr2 243199373 2805627 0.011536324972350978 0.16537115386461537 chr3 198022430 2192722 0.011073099143364719 0.10988348616786482 chr4 191154276 2102587 0.010999424360248158 0.1166998550440433 chr5 180915260 1953241 0.010796441383662163 0.10844214132979844 chr6 171115067 1866036 0.01090515308041226 0.1124181730558645 chr7 159138663 1840030 0.011562432191603873 0.15691935044994235 chr8 146364022 1702334 0.011630822771459505 0.1285933730193212 chr9 141213431 1379915 0.009771839620552806 0.12004195644960428 chr10 135534747 1602741 0.011825314433943643 0.13630394078042746 chr11 135006516 1520772 0.011264434081092798 0.12284058551457842 chr12 133851895 1457043 0.010885486529720032 0.1098736805011579 chr13 115169878 1003272 0.008711236109844624 0.09724501325341348 chr14 107349540 1022510 0.009525052459470251 0.10404687252277489 chr15 102531392 968254 0.009443488292834257 0.10143894162554455 chr16 90354753 1013935 0.011221711822951915 0.11461805131192694 chr17 81195210 908178 0.011185117939839062 0.11374302784707568 chr18 78077248 878072 0.011246195562630486 0.18865659137998525 chr19 59128983 698103 0.011806443550703384 0.1647852643995505 chr20 63025520 738957 0.011724726745610349 0.1148756183477148 chr21 48129895 433210 0.009000850718664563 0.10401935361520256 chr22 51304566 407471 0.007942197581400455 0.0928234987752199 chrMT 16571 7189 0.433830185263412 0.729814345038163 chrX 155270560 1851467 0.01192413423381741 0.1181279103771065 chrY 59373566 110441 0.0018601038718139315 0.06979014892348477