BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751221.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 = 7,069,643 number of mapped reads = 6,954,978 (98.38%) number of supplementary alignments = 128,445 (1.82%) number of secondary alignments = 0 number of mapped bases = 676,590,209 bp number of sequenced bases = 676,427,776 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 136,713 duplication rate = 1.76% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.6593 >>>>>>> ACTG content number of A's = 199,038,232 bp (29.42%) number of C's = 139,765,938 bp (20.66%) number of T's = 200,781,163 bp (29.68%) number of G's = 136,838,773 bp (20.23%) number of N's = 3,670 bp (0%) GC percentage = 40.89% >>>>>>> Mismatches and indels general error rate = 0.0029 number of mismatches = 1,839,908 number of insertions = 71,306 mapped reads with insertion percentage = 1.01% number of deletions = 75,135 mapped reads with deletion percentage = 1.06% homopolymer indels = 46.29% >>>>>>> Coverage mean coverageData = 0.2186X std coverageData = 0.6778X There is a 15.43% of reference with a coverageData >= 1X There is a 4.37% of reference with a coverageData >= 2X There is a 1.32% of reference with a coverageData >= 3X There is a 0.42% of reference with a coverageData >= 4X There is a 0.14% of reference with a coverageData >= 5X There is a 0.05% 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% 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 82686762 0.3317414482991398 1.0707726481309927 chr2 243199373 49515281 0.20359954217480652 0.5696826155897712 chr3 198022430 47422328 0.23947957814677862 0.6121949616910528 chr4 191154276 33807213 0.17685826185755846 0.5263952893654595 chr5 180915260 50608636 0.279736689984029 0.6983238188184838 chr6 171115067 40225391 0.23507801916706728 0.6802296688168415 chr7 159138663 39408386 0.24763552273905934 0.6398531009599068 chr8 146364022 34752425 0.23743830297311727 0.6193808273924021 chr9 141213431 30091191 0.21309014862757636 0.5937864995419037 chr10 135534747 31924907 0.23554776695012386 0.7520810528195596 chr11 135006516 31182766 0.2309723035886653 0.6293983152427925 chr12 133851895 37196750 0.27789483294203643 0.6676043297782525 chr13 115169878 21506511 0.18673729080445844 0.5471975240597701 chr14 107349540 14786098 0.1377378794543507 0.4679221149085983 chr15 102531392 16743792 0.1633040542354092 0.5140035023333487 chr16 90354753 16226834 0.1795902646095441 0.5423465286962328 chr17 81195210 16404366 0.20203612996382422 0.6160683935007101 chr18 78077248 14150222 0.1812336162258178 0.6146175437526142 chr19 59128983 8740409 0.14781936973277554 0.7726463934558528 chr20 63025520 11077396 0.17576048559377216 0.5316403555303205 chr21 48129895 8996719 0.18692579736564977 0.5625034703056064 chr22 51304566 6594950 0.12854508894978275 0.4615956589513835 chrMT 16571 1079603 65.15014181401243 33.58598661265159 chrX 155270560 30715965 0.1978222078931125 0.5641168653504938 chrY 59373566 745308 0.012552858960837892 0.2225035897043562