BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525023.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 = 831,487 number of mapped reads = 756,695 (91.01%) number of supplementary alignments = 3,955 (0.48%) number of secondary alignments = 0 number of mapped bases = 43,761,572 bp number of sequenced bases = 43,746,920 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 14,537 duplication rate = 1.29% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.5659 >>>>>>> ACTG content number of A's = 11,126,035 bp (25.43%) number of C's = 8,961,652 bp (20.49%) number of T's = 13,233,390 bp (30.25%) number of G's = 10,425,402 bp (23.83%) number of N's = 441 bp (0%) GC percentage = 44.32% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 219,783 number of insertions = 3,169 mapped reads with insertion percentage = 0.42% number of deletions = 8,808 mapped reads with deletion percentage = 1.16% homopolymer indels = 42.32% >>>>>>> Coverage mean coverageData = 0.0141X std coverageData = 0.1585X There is a 1.34% 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 4783729 0.019192445662953833 0.27729538887123667 chr2 243199373 3334505 0.013710993407865406 0.16461277793510642 chr3 198022430 2453212 0.012388556185276588 0.11650181361786802 chr4 191154276 2902585 0.015184515150474583 0.13337222391118023 chr5 180915260 1934772 0.010694354915113297 0.10795201883126976 chr6 171115067 3021801 0.017659467707773508 0.16853310941124203 chr7 159138663 2848914 0.017902085805509123 0.21240650055828572 chr8 146364022 2752590 0.018806465977000822 0.16140802506438945 chr9 141213431 1238707 0.008771878080067328 0.11944371258891803 chr10 135534747 2162197 0.01595308249625463 0.16544439560778473 chr11 135006516 1902119 0.01408909033694344 0.14514289303083375 chr12 133851895 2470276 0.018455293442053995 0.14159797423025386 chr13 115169878 866735 0.007525709109460027 0.09123222475227924 chr14 107349540 1029965 0.009594498495289313 0.10353283719456306 chr15 102531392 1259969 0.012288616934021534 0.11800497608118023 chr16 90354753 1445830 0.016001703861666248 0.1358157090177339 chr17 81195210 1189855 0.014654251155948731 0.1519590728083899 chr18 78077248 877486 0.011238690175145517 0.1775038803232062 chr19 59128983 1108042 0.01873940568198171 0.18960808690711678 chr20 63025520 903543 0.014336145104395806 0.1251397447115149 chr21 48129895 646638 0.013435267207626361 0.12212520031915498 chr22 51304566 600648 0.011707495976089145 0.11148259679218268 chrMT 16571 14027 0.8464787882445236 1.0598762357807228 chrX 155270560 1897178 0.012218530029131086 0.1261017116293475 chrY 59373566 116249 0.0019579251817214414 0.05926776455030238