BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525021.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 = 1,437,279 number of mapped reads = 1,312,853 (91.34%) number of supplementary alignments = 5,527 (0.38%) number of secondary alignments = 0 number of mapped bases = 75,705,732 bp number of sequenced bases = 75,680,763 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 35,173 duplication rate = 1.86% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.3398 >>>>>>> ACTG content number of A's = 17,888,774 bp (23.64%) number of C's = 14,699,383 bp (19.42%) number of T's = 24,921,398 bp (32.93%) number of G's = 18,170,523 bp (24.01%) number of N's = 685 bp (0%) GC percentage = 43.43% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 379,859 number of insertions = 5,378 mapped reads with insertion percentage = 0.41% number of deletions = 15,044 mapped reads with deletion percentage = 1.14% homopolymer indels = 43.03% >>>>>>> Coverage mean coverageData = 0.0245X std coverageData = 0.2369X There is a 2.26% of reference with a coverageData >= 1X There is a 0.13% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 8214283 0.032955917891173477 0.4592244062626153 chr2 243199373 7407991 0.03046056784036199 0.2739860866166283 chr3 198022430 4205748 0.0212387455299887 0.15525309407068844 chr4 191154276 4934254 0.025812940747399236 0.18113308356692498 chr5 180915260 3350169 0.018517890641176427 0.14684216724439098 chr6 171115067 5165139 0.030185179426660307 0.243812550470652 chr7 159138663 4842463 0.030429205000924258 0.30714873253181274 chr8 146364022 3934023 0.026878347193820623 0.231833496943291 chr9 141213431 2127258 0.01506413366586922 0.17487790676104434 chr10 135534747 3850274 0.02840802145002713 0.23206307052725222 chr11 135006516 3245393 0.024038787875986668 0.20850015010192913 chr12 133851895 3296468 0.02462772753422729 0.1689818470895549 chr13 115169878 2153773 0.018700835994633944 0.14446500104031787 chr14 107349540 1763733 0.016429814231155533 0.1394786120976079 chr15 102531392 2119093 0.02066774827362141 0.1597929609641708 chr16 90354753 2504275 0.027716029504280756 0.1820183601840997 chr17 81195210 1670106 0.020569021251376773 0.1831666574964031 chr18 78077248 1518066 0.0194431289381511 0.27675767527803175 chr19 59128983 1938832 0.03278987565201316 0.2829492389787187 chr20 63025520 1855191 0.029435552455576726 0.18431356892364129 chr21 48129895 1110901 0.0230813094439537 0.16659136464273758 chr22 51304566 1058303 0.020627852109693316 0.15157032530965858 chrMT 16571 797 0.04809607145012371 0.21384175883424522 chrX 155270560 3231014 0.020808928621111434 0.17547380976758875 chrY 59373566 208185 0.003506358368301476 0.09425715187048848