BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751210.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 = 6,191,034 number of mapped reads = 5,624,308 (90.85%) number of supplementary alignments = 317,517 (5.13%) number of secondary alignments = 0 number of mapped bases = 551,142,430 bp number of sequenced bases = 550,953,934 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 206,121 duplication rate = 2.13% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.1416 >>>>>>> ACTG content number of A's = 160,120,244 bp (29.06%) number of C's = 114,924,496 bp (20.86%) number of T's = 161,223,735 bp (29.26%) number of G's = 114,682,471 bp (20.82%) number of N's = 2,988 bp (0%) GC percentage = 41.67% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 2,142,681 number of insertions = 392,888 mapped reads with insertion percentage = 6.69% number of deletions = 84,984 mapped reads with deletion percentage = 1.48% homopolymer indels = 53.43% >>>>>>> Coverage mean coverageData = 0.178X std coverageData = 1.5828X There is a 13.23% of reference with a coverageData >= 1X There is a 3.01% of reference with a coverageData >= 2X There is a 0.79% of reference with a coverageData >= 3X There is a 0.24% of reference with a coverageData >= 4X There is a 0.09% of reference with a coverageData >= 5X There is a 0.04% 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% 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 69846405 0.2802256007217731 4.464026058683182 chr2 243199373 44534456 0.18311912341977954 0.7401965104633431 chr3 198022430 36804610 0.18586081384820902 0.6143975570335324 chr4 191154276 23432184 0.1225825782730594 0.5758141299649592 chr5 180915260 38295256 0.2116751013706638 0.565101348705498 chr6 171115067 32410275 0.18940631919923218 0.9426207532244983 chr7 159138663 30377027 0.19088401540736835 0.9195349884961982 chr8 146364022 26814677 0.18320538499550115 0.6381536109019061 chr9 141213431 21054500 0.1490970076352015 0.8429409588282302 chr10 135534747 28232298 0.2083030265294257 2.3063108808744177 chr11 135006516 25139998 0.1862132195160121 0.7999153326218029 chr12 133851895 27858020 0.20812570490690477 0.5659141156601827 chr13 115169878 15239631 0.132323062806405 0.4447014804475325 chr14 107349540 12449283 0.11596959800666123 0.4426747235905152 chr15 102531392 14771353 0.14406663863492655 0.46231792607081884 chr16 90354753 16331922 0.180753324620344 1.043315692444923 chr17 81195210 17959889 0.22119394727841704 0.7783130375378612 chr18 78077248 11051049 0.14153994003477172 1.5135705349049873 chr19 59128983 11494609 0.19439889571582855 3.009376267313373 chr20 63025520 10699309 0.1697615346926134 0.5219098454570407 chr21 48129895 4815576 0.10005373998842092 0.46271400464364565 chr22 51304566 7227845 0.14088112547331558 0.46477093617037846 chrMT 16571 1313000 79.23480779675336 27.281308827046402 chrX 155270560 21822127 0.14054259223384008 0.5295814056001953 chrY 59373566 1167131 0.019657417915575428 0.7152443820931358