BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751183.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 7,444,265 number of mapped reads = 7,374,751 (99.07%) number of supplementary alignments = 51,002 (0.69%) number of secondary alignments = 0 number of mapped bases = 973,606,817 bp number of sequenced bases = 973,308,317 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,122,980 duplication rate = 14.27% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 52.004 >>>>>>> ACTG content number of A's = 293,810,470 bp (30.19%) number of C's = 193,389,013 bp (19.87%) number of T's = 292,171,555 bp (30.02%) number of G's = 193,907,538 bp (19.92%) number of N's = 29,741 bp (0%) GC percentage = 39.79% >>>>>>> Mismatches and indels general error rate = 0.017 number of mismatches = 16,329,689 number of insertions = 108,959 mapped reads with insertion percentage = 1.45% number of deletions = 181,928 mapped reads with deletion percentage = 2.39% homopolymer indels = 41.29% >>>>>>> Coverage mean coverageData = 0.3145X std coverageData = 1.4582X There is a 12.47% of reference with a coverageData >= 1X There is a 6.03% of reference with a coverageData >= 2X There is a 3.44% of reference with a coverageData >= 3X There is a 2.19% of reference with a coverageData >= 4X There is a 1.51% of reference with a coverageData >= 5X There is a 1.09% of reference with a coverageData >= 6X There is a 0.81% of reference with a coverageData >= 7X There is a 0.63% of reference with a coverageData >= 8X There is a 0.49% of reference with a coverageData >= 9X There is a 0.39% of reference with a coverageData >= 10X There is a 0.32% of reference with a coverageData >= 11X There is a 0.26% of reference with a coverageData >= 12X There is a 0.22% of reference with a coverageData >= 13X There is a 0.18% of reference with a coverageData >= 14X There is a 0.16% of reference with a coverageData >= 15X There is a 0.13% of reference with a coverageData >= 16X There is a 0.12% of reference with a coverageData >= 17X There is a 0.1% of reference with a coverageData >= 18X There is a 0.09% of reference with a coverageData >= 19X There is a 0.08% of reference with a coverageData >= 20X There is a 0.07% of reference with a coverageData >= 21X There is a 0.06% of reference with a coverageData >= 22X There is a 0.05% of reference with a coverageData >= 23X There is a 0.05% of reference with a coverageData >= 24X There is a 0.04% of reference with a coverageData >= 25X There is a 0.04% of reference with a coverageData >= 26X There is a 0.03% of reference with a coverageData >= 27X There is a 0.03% of reference with a coverageData >= 28X There is a 0.03% of reference with a coverageData >= 29X There is a 0.02% of reference with a coverageData >= 30X There is a 0.02% of reference with a coverageData >= 31X There is a 0.02% of reference with a coverageData >= 32X There is a 0.02% of reference with a coverageData >= 33X There is a 0.02% of reference with a coverageData >= 34X There is a 0.01% of reference with a coverageData >= 35X There is a 0.01% of reference with a coverageData >= 36X There is a 0.01% of reference with a coverageData >= 37X There is a 0.01% of reference with a coverageData >= 38X There is a 0.01% of reference with a coverageData >= 39X There is a 0.01% of reference with a coverageData >= 40X There is a 0.01% of reference with a coverageData >= 41X There is a 0.01% of reference with a coverageData >= 42X There is a 0.01% of reference with a coverageData >= 43X There is a 0.01% of reference with a coverageData >= 44X There is a 0.01% of reference with a coverageData >= 45X There is a 0.01% of reference with a coverageData >= 46X There is a 0.01% of reference with a coverageData >= 47X There is a 0.01% of reference with a coverageData >= 48X There is a 0.01% 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 95937202 0.38490255958078434 1.545481404496791 chr2 243199373 76733826 0.31551819009007065 1.3769050070276572 chr3 198022430 71650363 0.3618295311293776 1.4191103680817712 chr4 191154276 60565364 0.31684022595445366 1.4330282531370502 chr5 180915260 87123932 0.48157315198286754 1.608661173341056 chr6 171115067 90930805 0.5314015100727513 1.8478710946311128 chr7 159138663 56248440 0.3534555270204828 1.4635170198524519 chr8 146364022 53283188 0.36404566690576456 2.1396640745476327 chr9 141213431 41534133 0.29412310646286893 1.3046003713280396 chr10 135534747 36826844 0.27171514917868256 1.076898000763115 chr11 135006516 50031914 0.37058888328027073 1.6706522256028482 chr12 133851895 50311419 0.3758737894596113 1.6314624883357267 chr13 115169878 36624275 0.318002203666483 1.3369724776973684 chr14 107349540 19134567 0.1782454493982927 1.0808970816516708 chr15 102531392 18962484 0.18494320256570787 1.1779200957735416 chr16 90354753 14368204 0.15901990236197094 1.1906193670770546 chr17 81195210 13331653 0.16419260446521414 1.3235996176080451 chr18 78077248 18465520 0.2365032128181567 1.1341000158465644 chr19 59128983 3147153 0.05322521782591796 0.43596606665458154 chr20 63025520 10407011 0.16512376256475156 1.1180581662077742 chr21 48129895 7988640 0.1659808316639793 0.7774715356291914 chr22 51304566 2963725 0.057767275528653725 0.5332323842096507 chrMT 16571 783 0.04725122201436244 0.24467070839518726 chrX 155270560 56475336 0.36372211190582426 1.8276795884588246 chrY 59373566 560036 0.00943241307082684 0.23062821810442893