BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524719.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 = 609,017 number of mapped reads = 559,383 (91.85%) number of supplementary alignments = 1,887 (0.31%) number of secondary alignments = 0 number of mapped bases = 32,809,514 bp number of sequenced bases = 32,799,376 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,510 duplication rate = 1.62% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6321 >>>>>>> ACTG content number of A's = 8,247,950 bp (25.15%) number of C's = 6,360,474 bp (19.39%) number of T's = 10,316,708 bp (31.45%) number of G's = 7,869,566 bp (23.99%) number of N's = 4,678 bp (0.01%) GC percentage = 43.39% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 167,051 number of insertions = 2,812 mapped reads with insertion percentage = 0.5% number of deletions = 6,258 mapped reads with deletion percentage = 1.11% homopolymer indels = 41.61% >>>>>>> Coverage mean coverageData = 0.0106X std coverageData = 0.1336X There is a 1% of reference with a coverageData >= 1X There is a 0.04% 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 2626973 0.010539484272739284 0.2118563931723348 chr2 243199373 2775397 0.011412023665044565 0.16324912025595703 chr3 198022430 2201040 0.011115104485890816 0.10900717189925277 chr4 191154276 2137235 0.011180681095514703 0.11550392250311466 chr5 180915260 1963133 0.010851118916115754 0.10794493127417434 chr6 171115067 1885435 0.011018521238693726 0.11750266269020258 chr7 159138663 1829442 0.011495899019837812 0.15269474582389306 chr8 146364022 1661028 0.011348608608200176 0.13975893465587452 chr9 141213431 1380749 0.009777745574356875 0.11641314671483143 chr10 135534747 1619389 0.011948146404109936 0.13968584554889577 chr11 135006516 1491645 0.011048688938836107 0.12091083916080875 chr12 133851895 1462203 0.010924036600303642 0.10909019817575806 chr13 115169878 1038795 0.009019676134414243 0.09858166917041739 chr14 107349540 969124 0.009027742457024035 0.09931687115508289 chr15 102531392 937484 0.009143385081517278 0.09925361101938109 chr16 90354753 937980 0.01038108089344232 0.10963523350163379 chr17 81195210 890407 0.010966250349004577 0.11142029006489401 chr18 78077248 890287 0.011402643187423818 0.1762116118450371 chr19 59128983 661754 0.011191702722165879 0.16749404702539306 chr20 63025520 699281 0.01109520397451699 0.10966738719557367 chr21 48129895 430464 0.00894379678160528 0.10599280031581286 chr22 51304566 390172 0.0076050151169780875 0.09042497018887605 chrMT 16571 7503 0.4527789511797719 0.765711049114163 chrX 155270560 1809463 0.011653612893519544 0.11650248607200693 chrY 59373566 113131 0.0019054102291918933 0.0762509975870865