BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525158.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 = 941,326 number of mapped reads = 662,841 (70.42%) number of supplementary alignments = 2,477 (0.26%) number of secondary alignments = 0 number of mapped bases = 40,482,608 bp number of sequenced bases = 40,469,850 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 11,966 duplication rate = 1.33% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.626 >>>>>>> ACTG content number of A's = 11,288,103 bp (27.89%) number of C's = 7,650,457 bp (18.9%) number of T's = 11,997,536 bp (29.65%) number of G's = 9,532,634 bp (23.55%) number of N's = 1,120 bp (0%) GC percentage = 42.46% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 193,705 number of insertions = 3,783 mapped reads with insertion percentage = 0.57% number of deletions = 7,943 mapped reads with deletion percentage = 1.19% homopolymer indels = 41.32% >>>>>>> Coverage mean coverageData = 0.0131X std coverageData = 0.1514X There is a 1.23% 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 4062668 0.016299530102274046 0.23604422068521755 chr2 243199373 3401844 0.013987881457243724 0.16726579676346928 chr3 198022430 3077054 0.015538916475269999 0.12950368887804134 chr4 191154276 1789940 0.009363850170947785 0.10463904904548017 chr5 180915260 1869575 0.010333981776882724 0.10505830963229656 chr6 171115067 2639700 0.015426461540058304 0.13368137808238995 chr7 159138663 3128515 0.01965905042195811 0.2513714885543327 chr8 146364022 2149755 0.01468772838177404 0.1449351006709524 chr9 141213431 1405114 0.009950285819484126 0.11735199182902811 chr10 135534747 1978508 0.014597791664450445 0.1612938868872369 chr11 135006516 1888398 0.013987458205350621 0.13634608620121863 chr12 133851895 1889290 0.014114779622656818 0.12370189758115663 chr13 115169878 1082635 0.009400331222023176 0.1004755292303468 chr14 107349540 1890682 0.01761239032789521 0.13926746676430554 chr15 102531392 786062 0.007666549577323597 0.09066868365052085 chr16 90354753 1051741 0.01164012921378912 0.11744609577861703 chr17 81195210 744674 0.009171403091389259 0.10162498914541702 chr18 78077248 840112 0.010760010393808962 0.19572019367180116 chr19 59128983 704018 0.011906479095031957 0.17109065158862358 chr20 63025520 734145 0.01164837672104887 0.11248741912858168 chr21 48129895 542046 0.011262147985155587 0.1134329552997763 chr22 51304566 344201 0.006708974012176616 0.08430475250839914 chrMT 16571 113274 6.835676784744433 4.553344659150247 chrX 155270560 2264325 0.014583092892818832 0.1282268481477378 chrY 59373566 104332 0.00175721296578346 0.06135856500231795