BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524926.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 = 670,173 number of mapped reads = 620,932 (92.65%) number of supplementary alignments = 2,658 (0.4%) number of secondary alignments = 0 number of mapped bases = 36,264,002 bp number of sequenced bases = 36,252,416 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 15,274 duplication rate = 1.93% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.9493 >>>>>>> ACTG content number of A's = 8,677,410 bp (23.94%) number of C's = 6,484,866 bp (17.89%) number of T's = 11,951,647 bp (32.97%) number of G's = 9,138,256 bp (25.21%) number of N's = 237 bp (0%) GC percentage = 43.1% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 179,070 number of insertions = 2,464 mapped reads with insertion percentage = 0.39% number of deletions = 6,801 mapped reads with deletion percentage = 1.09% homopolymer indels = 43.59% >>>>>>> Coverage mean coverageData = 0.0117X std coverageData = 0.1369X There is a 1.1% 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 3665519 0.014706157943734872 0.21960713260309037 chr2 243199373 3155443 0.012974716838599744 0.15320618248592266 chr3 198022430 2556743 0.012911380796609757 0.11881692363835625 chr4 191154276 1615507 0.008451325462371555 0.10535146950941729 chr5 180915260 2398788 0.013259180016102566 0.12058968762694425 chr6 171115067 2292029 0.01339466500632583 0.12508820637514267 chr7 159138663 2168008 0.013623389559330406 0.15822416024740396 chr8 146364022 3138755 0.02144485343536132 0.18060009348652897 chr9 141213431 1279960 0.009064010348987272 0.11461419136636433 chr10 135534747 1552470 0.01145440585800481 0.14504065294364907 chr11 135006516 1817952 0.013465661168532043 0.13454826221828334 chr12 133851895 1176270 0.008787847194841731 0.09945315361765551 chr13 115169878 772863 0.006710634876247764 0.08578056607790828 chr14 107349540 658476 0.006133943377866361 0.08242276238172634 chr15 102531392 929663 0.009067106003983638 0.10016822404799118 chr16 90354753 1069934 0.011841479993863743 0.11658943336448048 chr17 81195210 927095 0.011418099663760953 0.11319195266947045 chr18 78077248 958876 0.012281119334533921 0.16589669087777115 chr19 59128983 718807 0.012156593324123298 0.16858277966134977 chr20 63025520 669869 0.010628535869279618 0.10937685456362913 chr21 48129895 318516 0.006617841156728059 0.09081913225991521 chr22 51304566 650735 0.012683763858366915 0.11795788151903898 chrMT 16571 8604 0.5192203246635689 0.7647974322266738 chrX 155270560 1664445 0.010719643182841616 0.1130846067906811 chrY 59373566 98675 0.0016619348751934489 0.06413080217032087