BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524911.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 = 489,148 number of mapped reads = 437,956 (89.53%) number of supplementary alignments = 2,497 (0.51%) number of secondary alignments = 0 number of mapped bases = 25,029,819 bp number of sequenced bases = 25,022,348 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,297 duplication rate = 0.83% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.3097 >>>>>>> ACTG content number of A's = 6,329,654 bp (25.3%) number of C's = 4,524,987 bp (18.08%) number of T's = 7,756,785 bp (31%) number of G's = 6,410,054 bp (25.62%) number of N's = 868 bp (0%) GC percentage = 43.7% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 124,602 number of insertions = 1,613 mapped reads with insertion percentage = 0.37% number of deletions = 4,460 mapped reads with deletion percentage = 1.01% homopolymer indels = 42.12% >>>>>>> Coverage mean coverageData = 0.0081X std coverageData = 0.1048X There is a 0.78% 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 1792551 0.0071917614199244065 0.13138912459154595 chr2 243199373 2106295 0.008660774795665283 0.11359159473884935 chr3 198022430 1529591 0.007724332036527377 0.08942567939508198 chr4 191154276 1560154 0.008161753075301334 0.095915944314595 chr5 180915260 1375989 0.007605709988201106 0.08922677060963138 chr6 171115067 1164534 0.006805560845205992 0.08733441575466756 chr7 159138663 1607312 0.010100072287273144 0.12999749036903513 chr8 146364022 1089827 0.007446003362766295 0.09654813396685638 chr9 141213431 1155926 0.00818566613539756 0.10602894250483967 chr10 135534747 959372 0.007078421004467585 0.10027254942373919 chr11 135006516 960582 0.007115078801085423 0.09648469107780473 chr12 133851895 1894923 0.014156863449710592 0.1259503401098495 chr13 115169878 955610 0.00829739526163256 0.09308943580808235 chr14 107349540 898428 0.008369183510241403 0.09669104956614608 chr15 102531392 643455 0.006275687742540353 0.08152132690521409 chr16 90354753 710568 0.007864201676252715 0.09282775898676174 chr17 81195210 712852 0.0087794834202658 0.09657672020219063 chr18 78077248 794396 0.01017448770735362 0.16137356880509746 chr19 59128983 431123 0.007291229751068102 0.11413531164652717 chr20 63025520 757731 0.012022606080838365 0.11390672053957751 chr21 48129895 305403 0.006345390946728639 0.08396343228969318 chr22 51304566 237755 0.00463418792003815 0.0693372971216294 chrMT 16571 1212 0.0731398225816185 0.2633617189899342 chrX 155270560 1308358 0.008426310821574934 0.09853086817055914 chrY 59373566 75872 0.0012778750732270318 0.043932576372944905