BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751208.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 = 5,779,653 number of mapped reads = 5,390,986 (93.28%) number of supplementary alignments = 325,210 (5.63%) number of secondary alignments = 0 number of mapped bases = 527,070,700 bp number of sequenced bases = 526,883,798 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 220,844 duplication rate = 2.09% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.9017 >>>>>>> ACTG content number of A's = 155,935,698 bp (29.6%) number of C's = 107,198,338 bp (20.35%) number of T's = 156,935,499 bp (29.79%) number of G's = 106,811,473 bp (20.27%) number of N's = 2,790 bp (0%) GC percentage = 40.62% >>>>>>> Mismatches and indels general error rate = 0.0056 number of mismatches = 2,214,113 number of insertions = 520,758 mapped reads with insertion percentage = 9.16% number of deletions = 87,030 mapped reads with deletion percentage = 1.58% homopolymer indels = 54.38% >>>>>>> Coverage mean coverageData = 0.1703X std coverageData = 1.7785X There is a 12.8% of reference with a coverageData >= 1X There is a 2.74% of reference with a coverageData >= 2X There is a 0.68% of reference with a coverageData >= 3X There is a 0.19% of reference with a coverageData >= 4X There is a 0.07% of reference with a coverageData >= 5X There is a 0.03% of reference with a coverageData >= 6X There is a 0.02% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% of reference with a coverageData >= 13X There is a 0.01% of reference with a coverageData >= 14X There is a 0.01% of reference with a coverageData >= 15X There is a 0.01% of reference with a coverageData >= 16X There is a 0.01% of reference with a coverageData >= 17X There is a 0.01% of reference with a coverageData >= 18X There is a 0.01% of reference with a coverageData >= 19X There is a 0.01% 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 62914976 0.25241652657707925 4.816558255611101 chr2 243199373 39706945 0.1632691092505407 0.801413490362407 chr3 198022430 35080808 0.1771557292777389 0.6876095483970586 chr4 191154276 25085851 0.13123353306519808 0.6538069719157521 chr5 180915260 43432456 0.24007071598050933 0.5995665916469896 chr6 171115067 30274798 0.1769265473273607 1.2193321171264302 chr7 159138663 29353750 0.18445391865583288 1.0819031886027615 chr8 146364022 26157235 0.17871355707893843 0.6681489238802476 chr9 141213431 22797475 0.16143984915995702 0.9604552374932714 chr10 135534747 27168533 0.20045437499507046 3.2254870179143826 chr11 135006516 24109940 0.17858352851650508 0.8710533332534989 chr12 133851895 27448536 0.20506647291022664 0.5539766144327296 chr13 115169878 15493669 0.13452883053327538 0.44058512513011716 chr14 107349540 11060550 0.10303304513461352 0.42923190728760363 chr15 102531392 12173182 0.11872638967000468 0.40999079220554924 chr16 90354753 14617853 0.16178288927423662 1.3277378013599437 chr17 81195210 13510191 0.1663914780194546 0.7823301423683944 chr18 78077248 11303364 0.1447715472758466 1.9552496494893903 chr19 59128983 8989912 0.15203900936364828 3.240227562778669 chr20 63025520 8853460 0.14047420790816165 0.49192835188434664 chr21 48129895 6704325 0.13929648090859123 0.5534234197265686 chr22 51304566 5470792 0.10663362789191122 0.3950678958772536 chrMT 16571 1162519 70.15382294369682 22.63012570462137 chrX 155270560 22833166 0.1470540584126186 0.5646851557378526 chrY 59373566 1366414 0.02301384424172872 0.9350747527607389