BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525148.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 = 2,091,651 number of mapped reads = 1,906,519 (91.15%) number of supplementary alignments = 9,266 (0.44%) number of secondary alignments = 0 number of mapped bases = 111,239,623 bp number of sequenced bases = 111,210,614 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 66,295 duplication rate = 2.58% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.9934 >>>>>>> ACTG content number of A's = 29,490,805 bp (26.52%) number of C's = 22,130,417 bp (19.9%) number of T's = 34,178,268 bp (30.73%) number of G's = 25,407,717 bp (22.85%) number of N's = 3,407 bp (0%) GC percentage = 42.75% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 516,910 number of insertions = 7,606 mapped reads with insertion percentage = 0.4% number of deletions = 17,498 mapped reads with deletion percentage = 0.91% homopolymer indels = 42.4% >>>>>>> Coverage mean coverageData = 0.0359X std coverageData = 0.3116X There is a 3.17% of reference with a coverageData >= 1X There is a 0.31% of reference with a coverageData >= 2X There is a 0.04% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% 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 9094207 0.03648619595615772 0.5849656578749542 chr2 243199373 9458850 0.03889339796941006 0.32737211489198753 chr3 198022430 7512379 0.03793701046896556 0.2145676944665761 chr4 191154276 6491427 0.033959099089156654 0.22883878825967366 chr5 180915260 6829911 0.03775198952260854 0.21556205396635286 chr6 171115067 6500445 0.03798873538120404 0.24313682085762423 chr7 159138663 6138693 0.03857449147979834 0.33652867924382324 chr8 146364022 5590625 0.038196716130142964 0.3873982697858725 chr9 141213431 4635686 0.0328275148275379 0.286453010327498 chr10 135534747 5285017 0.03899381610237558 0.2975694304899793 chr11 135006516 5181145 0.03837699952200826 0.28490056061387703 chr12 133851895 5317362 0.03972571325942005 0.22706912538690757 chr13 115169878 3700026 0.03212668159638061 0.19712052590358614 chr14 107349540 3269835 0.03045970201642224 0.21453776269195662 chr15 102531392 3246154 0.03166009879198753 0.19626139433450768 chr16 90354753 3225745 0.03570088891726592 0.2231824892068496 chr17 81195210 2841292 0.03499334505077332 0.22156086228861832 chr18 78077248 3018405 0.038659213500967654 0.5079169919960554 chr19 59128983 2122591 0.03589764092509421 0.417040195644576 chr20 63025520 2334797 0.03704526356942394 0.2212937916867878 chr21 48129895 1487026 0.030896098983802064 0.2191996892965548 chr22 51304566 1236278 0.024096841594956675 0.17093452478006926 chrMT 16571 5181 0.31265463761993845 0.6303881291070746 chrX 155270560 6402792 0.041236355430160104 0.25131856025017696 chrY 59373566 313754 0.005284405521473984 0.1343872905572086