BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525132.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 = 597,027 number of mapped reads = 534,378 (89.51%) number of supplementary alignments = 14,081 (2.36%) number of secondary alignments = 0 number of mapped bases = 41,098,839 bp number of sequenced bases = 41,082,318 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,845 duplication rate = 1.24% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.9237 >>>>>>> ACTG content number of A's = 11,083,303 bp (26.98%) number of C's = 8,115,479 bp (19.75%) number of T's = 12,575,688 bp (30.61%) number of G's = 9,306,366 bp (22.65%) number of N's = 1,482 bp (0%) GC percentage = 42.41% >>>>>>> Mismatches and indels general error rate = 0.0074 number of mismatches = 298,503 number of insertions = 3,682 mapped reads with insertion percentage = 0.68% number of deletions = 9,646 mapped reads with deletion percentage = 1.78% homopolymer indels = 42.68% >>>>>>> Coverage mean coverageData = 0.0133X std coverageData = 0.1717X There is a 1.24% of reference with a coverageData >= 1X There is a 0.05% of reference with a coverageData >= 2X There is a 0.01% 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 3955791 0.015870736787452176 0.28018291744853163 chr2 243199373 3434377 0.014121652361332362 0.2110857708075398 chr3 198022430 2649742 0.013381019513799523 0.12035901485029375 chr4 191154276 2640648 0.013814224066847451 0.12565110685654846 chr5 180915260 2459382 0.013594110303354178 0.12233351193252263 chr6 171115067 2315014 0.013528989822970995 0.12991130643563817 chr7 159138663 2221917 0.013962144447575257 0.2272831744867763 chr8 146364022 2056852 0.014052989060385344 0.20674757289276507 chr9 141213431 1656479 0.011730321884183948 0.15732041243938058 chr10 135534747 1891929 0.013958996064677053 0.1805805120273293 chr11 135006516 2241031 0.016599428430550716 0.19558619111484202 chr12 133851895 1772708 0.013243802039560217 0.11962570368024673 chr13 115169878 1520449 0.01320179396213305 0.11974806375058564 chr14 107349540 1191466 0.011098939035975376 0.11762371571735726 chr15 102531392 1100378 0.01073210826982628 0.10675663947222165 chr16 90354753 866666 0.009591814168314975 0.10676944057428547 chr17 81195210 1163265 0.014326768783527994 0.1360745809306881 chr18 78077248 1102672 0.014122833837586078 0.2576011620081671 chr19 59128983 753592 0.012744883503239011 0.20271255460130166 chr20 63025520 782160 0.0124102109748559 0.11696124457777798 chr21 48129895 533397 0.011082446782815546 0.11343107504137777 chr22 51304566 390343 0.007608348153651665 0.09063851053150065 chrMT 16571 2219 0.13390863556816124 0.3605238895923046 chrX 155270560 2303102 0.014832831156144475 0.14824008999820143 chrY 59373566 93260 0.0015707326725162508 0.047956467613121924