BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525263.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 = 497,550 number of mapped reads = 447,108 (89.86%) number of supplementary alignments = 1,877 (0.38%) number of secondary alignments = 0 number of mapped bases = 25,647,360 bp number of sequenced bases = 25,639,100 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,611 duplication rate = 1.44% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8337 >>>>>>> ACTG content number of A's = 6,541,909 bp (25.52%) number of C's = 4,582,061 bp (17.87%) number of T's = 8,487,753 bp (33.1%) number of G's = 6,026,858 bp (23.51%) number of N's = 519 bp (0%) GC percentage = 41.38% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 131,478 number of insertions = 1,904 mapped reads with insertion percentage = 0.42% number of deletions = 5,206 mapped reads with deletion percentage = 1.16% homopolymer indels = 43.21% >>>>>>> Coverage mean coverageData = 0.0083X std coverageData = 0.114X There is a 0.79% 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 2666574 0.010698364518818991 0.1765872191308806 chr2 243199373 2096960 0.008622390650653528 0.14722999043813062 chr3 198022430 1988102 0.010039781857035085 0.10292206469975212 chr4 191154276 1802794 0.009431094285330033 0.10124207327564841 chr5 180915260 1161364 0.006419381095878811 0.0826192834416822 chr6 171115067 1604962 0.009379431210461437 0.10409608682526285 chr7 159138663 1611334 0.010125345843831804 0.14602134122685684 chr8 146364022 1438865 0.009830728756551934 0.12217157102113736 chr9 141213431 838741 0.005939527097815505 0.08962979564899431 chr10 135534747 1344072 0.009916807532757633 0.11797689519950577 chr11 135006516 1162249 0.008608836332018227 0.10505207323693784 chr12 133851895 1146054 0.008562105153610264 0.09600525965041246 chr13 115169878 799048 0.006937994672530607 0.08583786643949287 chr14 107349540 947264 0.00882410860819711 0.09712208156533374 chr15 102531392 687203 0.006702366822445949 0.08532216677267739 chr16 90354753 737556 0.00816289099921506 0.095397991788146 chr17 81195210 456524 0.005622548423730907 0.07797322285522161 chr18 78077248 543991 0.006967343418661477 0.1305327027943131 chr19 59128983 436744 0.007386293114495137 0.12754032267464482 chr20 63025520 533953 0.008472012606956673 0.0951026873304215 chr21 48129895 324608 0.006744415295316975 0.08593968662823989 chr22 51304566 195390 0.003808432957019849 0.06314069958115615 chrMT 16571 23547 1.4209764045621869 1.3015300991841405 chrX 155270560 1026472 0.006610860423250872 0.08738845518528286 chrY 59373566 72989 0.0012293181110260415 0.0449151213715672