BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524600.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 = 412,693 number of mapped reads = 378,893 (91.81%) number of supplementary alignments = 1,322 (0.32%) number of secondary alignments = 0 number of mapped bases = 21,950,344 bp number of sequenced bases = 21,944,749 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,061 duplication rate = 0.99% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6629 >>>>>>> ACTG content number of A's = 5,739,272 bp (26.15%) number of C's = 4,272,612 bp (19.47%) number of T's = 6,800,698 bp (30.99%) number of G's = 5,131,519 bp (23.38%) number of N's = 648 bp (0%) GC percentage = 42.85% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 102,658 number of insertions = 1,840 mapped reads with insertion percentage = 0.48% number of deletions = 3,523 mapped reads with deletion percentage = 0.92% homopolymer indels = 42.92% >>>>>>> Coverage mean coverageData = 0.0071X std coverageData = 0.0971X There is a 0.68% of reference with a coverageData >= 1X There is a 0.02% of reference with a coverageData >= 2X There is a 0% 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 1603815 0.0064345476595623 0.12420891321519416 chr2 243199373 1519544 0.006248141108488796 0.09625613969224443 chr3 198022430 1356221 0.006848825155816945 0.08462820309545471 chr4 191154276 1390195 0.007272633545482393 0.09047314419068728 chr5 180915260 1259653 0.006962668599652677 0.08557675106635115 chr6 171115067 1173981 0.006860769309110577 0.08697345704814471 chr7 159138663 1375182 0.00864140727385651 0.11590544068951927 chr8 146364022 944730 0.0064546600120075955 0.09441916152233681 chr9 141213431 1009901 0.007151593108731987 0.09989914303710272 chr10 135534747 859544 0.006341871874376244 0.09424285989566665 chr11 135006516 879288 0.006512930087018911 0.08839508649152693 chr12 133851895 1675509 0.012517633762301236 0.11773623483418633 chr13 115169878 809496 0.007028712837570254 0.08588713466331073 chr14 107349540 790092 0.007359994276640589 0.08937065462069205 chr15 102531392 565059 0.005511082888643509 0.0759078772399129 chr16 90354753 646827 0.007158749025632332 0.0875102509157345 chr17 81195210 664633 0.008185618338815799 0.09349736991568075 chr18 78077248 705239 0.009032580144218198 0.13935089457952266 chr19 59128983 377826 0.006389861296954828 0.1100238553868698 chr20 63025520 676449 0.010732938022566097 0.10716540570898758 chr21 48129895 254508 0.005287940063031511 0.07661747410121171 chr22 51304566 221036 0.004308310492286398 0.06704551595127296 chrMT 16571 12688 0.765674974352785 0.9555669503352662 chrX 155270560 1115139 0.007181908791982202 0.08997665375671733 chrY 59373566 63789 0.001074367000291005 0.03906867762916682