BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524645.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 = 950,662 number of mapped reads = 880,712 (92.64%) number of supplementary alignments = 3,790 (0.4%) number of secondary alignments = 0 number of mapped bases = 51,821,547 bp number of sequenced bases = 51,805,024 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 42,194 duplication rate = 3.85% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2338 >>>>>>> ACTG content number of A's = 12,901,322 bp (24.9%) number of C's = 8,965,484 bp (17.31%) number of T's = 16,530,843 bp (31.91%) number of G's = 13,407,024 bp (25.88%) number of N's = 351 bp (0%) GC percentage = 43.19% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 254,053 number of insertions = 3,669 mapped reads with insertion percentage = 0.42% number of deletions = 9,863 mapped reads with deletion percentage = 1.11% homopolymer indels = 44.18% >>>>>>> Coverage mean coverageData = 0.0167X std coverageData = 0.1825X There is a 1.48% of reference with a coverageData >= 1X There is a 0.14% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 5366840 0.02153190222141914 0.2901698014104956 chr2 243199373 4577255 0.018820998358412708 0.2120090924063535 chr3 198022430 3275035 0.016538707256546645 0.14122874363302898 chr4 191154276 2385971 0.012481912777091108 0.15526412581767518 chr5 180915260 3125823 0.01727782941029961 0.14464720237527334 chr6 171115067 3319627 0.019399969027858895 0.1569392622515628 chr7 159138663 3171321 0.01992803596697303 0.21409571086144713 chr8 146364022 4558148 0.031142544033123113 0.26538267627901807 chr9 141213431 1876329 0.013287185126179676 0.1475381908463367 chr10 135534747 2298854 0.01696136268288456 0.21122968450406007 chr11 135006516 2651370 0.019638829876922385 0.17059732767557848 chr12 133851895 1571673 0.011741880830301282 0.12057398945635595 chr13 115169878 1249704 0.010850962262893081 0.1155419033024749 chr14 107349540 951206 0.008860829771604052 0.10671401045690783 chr15 102531392 1286681 0.012549142022767037 0.12251145523693396 chr16 90354753 1553099 0.017188902060304455 0.14766363555764653 chr17 81195210 1181730 0.014554183676598657 0.1366772594279537 chr18 78077248 1338365 0.0171415493537887 0.22708795097893217 chr19 59128983 1077058 0.01821539869880732 0.21743187949606327 chr20 63025520 1006265 0.015965992823224626 0.14225190629187667 chr21 48129895 468326 0.009730459623899033 0.12952059684030293 chr22 51304566 981425 0.019129388990445802 0.15429483357371565 chrMT 16571 3712 0.2240057932532738 0.5296920653205373 chrX 155270560 2374483 0.015292551273081002 0.14284669224403426 chrY 59373566 171247 0.0028842296587003042 0.12373184952098287