BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524354.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 = 442,006 number of mapped reads = 408,094 (92.33%) number of supplementary alignments = 1,905 (0.43%) number of secondary alignments = 0 number of mapped bases = 24,369,235 bp number of sequenced bases = 24,362,067 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 7,527 duplication rate = 1.37% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5271 >>>>>>> ACTG content number of A's = 6,099,985 bp (25.04%) number of C's = 4,952,295 bp (20.33%) number of T's = 7,380,713 bp (30.3%) number of G's = 5,925,419 bp (24.32%) number of N's = 3,655 bp (0.02%) GC percentage = 44.65% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 122,944 number of insertions = 1,476 mapped reads with insertion percentage = 0.36% number of deletions = 4,414 mapped reads with deletion percentage = 1.07% homopolymer indels = 42.68% >>>>>>> Coverage mean coverageData = 0.0079X std coverageData = 0.1096X There is a 0.75% of reference with a coverageData >= 1X There is a 0.03% 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 1972771 0.007914808765912764 0.16976736791961664 chr2 243199373 2060639 0.008473044048514056 0.12571569707154093 chr3 198022430 1595562 0.008057481165138717 0.0924718039887057 chr4 191154276 1524584 0.00797567301084073 0.09651195718299636 chr5 180915260 1448584 0.008006975199328128 0.09215025198184103 chr6 171115067 1346289 0.0078677408343007 0.09312470165659047 chr7 159138663 1336574 0.00839880123914325 0.12723885314622277 chr8 146364022 1259381 0.008604443788788477 0.10530980958893629 chr9 141213431 1033188 0.007316499519086113 0.10140078581674056 chr10 135534747 1196636 0.00882899792479046 0.1099343188695064 chr11 135006516 1107389 0.008202485574844402 0.1056948678766583 chr12 133851895 1089428 0.008139055483674698 0.09350583125760738 chr13 115169878 752973 0.006537933469027379 0.083220704305676 chr14 107349540 729697 0.006797392890551744 0.08619897843052675 chr15 102531392 707766 0.006902920034480757 0.08579946858756846 chr16 90354753 749263 0.00829245806249949 0.09640688391899443 chr17 81195210 681280 0.008390642748506963 0.09795368457593048 chr18 78077248 634386 0.008125107073446032 0.15001777304781788 chr19 59128983 525003 0.008878945203573008 0.1290986855349932 chr20 63025520 541691 0.00859478826989448 0.09678619010985355 chr21 48129895 324835 0.006749131698708256 0.08963380346999376 chr22 51304566 318102 0.006200266853441465 0.08131935395921405 chrMT 16571 5294 0.3194737794942973 0.5988313986823045 chrX 155270560 1346138 0.008669628035089201 0.09929279164037405 chrY 59373566 81782 0.0013774143193622562 0.05177332519404551