BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524710.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 = 924,597 number of mapped reads = 853,364 (92.3%) number of supplementary alignments = 3,125 (0.34%) number of secondary alignments = 0 number of mapped bases = 50,655,205 bp number of sequenced bases = 50,639,735 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,492 duplication rate = 1.98% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.9724 >>>>>>> ACTG content number of A's = 12,518,590 bp (24.72%) number of C's = 9,903,914 bp (19.56%) number of T's = 15,773,476 bp (31.15%) number of G's = 12,437,261 bp (24.56%) number of N's = 6,494 bp (0.01%) GC percentage = 44.12% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 252,070 number of insertions = 3,138 mapped reads with insertion percentage = 0.37% number of deletions = 9,498 mapped reads with deletion percentage = 1.1% homopolymer indels = 44.3% >>>>>>> Coverage mean coverageData = 0.0164X std coverageData = 0.1851X There is a 1.52% of reference with a coverageData >= 1X There is a 0.08% 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 4207481 0.016880523639698376 0.3201760258735925 chr2 243199373 4413419 0.018147328858450634 0.23305808979017556 chr3 198022430 3444960 0.017396817118141616 0.13858072943786642 chr4 191154276 3418540 0.017883670046700918 0.15378787329011692 chr5 180915260 3128984 0.017295301678808078 0.13822076810490488 chr6 171115067 2959545 0.0172956423527567 0.14897229966961587 chr7 159138663 2854700 0.01793844403481007 0.21114418941137705 chr8 146364022 2654689 0.018137578919497032 0.20367433936069862 chr9 141213431 2151971 0.015239138265821187 0.16047669147459093 chr10 135534747 2516512 0.01856728297135494 0.19688807996383556 chr11 135006516 2360071 0.017481163649908572 0.1641847741274765 chr12 133851895 2333826 0.017435883145322673 0.13964931088520416 chr13 115169878 1647467 0.014304669142742341 0.12599010467841956 chr14 107349540 1544728 0.01438970302061844 0.12830347375432974 chr15 102531392 1482995 0.01446381416532412 0.12671950943224386 chr16 90354753 1502693 0.01663103434082765 0.14436194517924614 chr17 81195210 1406995 0.017328546844081073 0.14307818147080395 chr18 78077248 1391667 0.01782423222703751 0.2635239862468049 chr19 59128983 1027782 0.01738203412022155 0.2370127800373216 chr20 63025520 1099863 0.017451073787253163 0.1398192842986181 chr21 48129895 686935 0.014272522306562273 0.13933561354945584 chr22 51304566 604344 0.011779536347700514 0.11397093788773449 chrMT 16571 23786 1.4353991913583972 1.6857615704370044 chrX 155270560 1639017 0.01055587743098241 0.11735299419160658 chrY 59373566 152235 0.0025640198198639444 0.11536939931386597