BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716237.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 = 572,574 number of mapped reads = 508,227 (88.76%) number of supplementary alignments = 2,844 (0.5%) number of secondary alignments = 0 number of mapped bases = 28,813,824 bp number of sequenced bases = 28,805,992 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 7,515 duplication rate = 1.1% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.6439 >>>>>>> ACTG content number of A's = 7,070,016 bp (24.54%) number of C's = 5,310,547 bp (18.44%) number of T's = 9,274,355 bp (32.2%) number of G's = 7,150,449 bp (24.82%) number of N's = 625 bp (0%) GC percentage = 43.26% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 144,387 number of insertions = 2,117 mapped reads with insertion percentage = 0.41% number of deletions = 4,639 mapped reads with deletion percentage = 0.91% homopolymer indels = 39.74% >>>>>>> Coverage mean coverageData = 0.0093X std coverageData = 0.1114X There is a 0.89% of reference with a coverageData >= 1X There is a 0.03% 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 2369627 0.009507005400800987 0.14324386691697805 chr2 243199373 2435990 0.01001643207361394 0.12362598741781668 chr3 198022430 1909010 0.009640372557795599 0.10118772531689126 chr4 191154276 1839946 0.009625450387518403 0.10448502178717121 chr5 180915260 1709736 0.009450479743941998 0.10048176455849389 chr6 171115067 1657056 0.009683869626746545 0.10415928359929427 chr7 159138663 1552414 0.009755102693052034 0.11665618680331019 chr8 146364022 1437744 0.009823069770520517 0.10812934087376541 chr9 141213431 1207746 0.008552628396940515 0.11180497947297233 chr10 135534747 1386431 0.010229339934504028 0.1161049270375199 chr11 135006516 1302468 0.009647445461076857 0.11103160435695313 chr12 133851895 1300613 0.009716806773635891 0.10318860048491049 chr13 115169878 911979 0.007918554884637457 0.09121886090012114 chr14 107349540 870835 0.008112144681756438 0.09522264919419814 chr15 102531392 848988 0.008280273811166047 0.0937649712007809 chr16 90354753 875850 0.009693457963412285 0.10567085010236814 chr17 81195210 775820 0.009554997148230788 0.10253043139602412 chr18 78077248 777511 0.009958227523593044 0.16002862936765702 chr19 59128983 601712 0.010176261614376151 0.12543948824099335 chr20 63025520 614935 0.009756920688635333 0.10383217301324471 chr21 48129895 370960 0.007707475779866131 0.09368258869593375 chr22 51304566 342634 0.006678430921723419 0.08393746884427958 chrMT 16571 1295 0.07814857280791744 0.2849807438983198 chrX 155270560 1622767 0.010451221403465022 0.11329803558625864 chrY 59373566 89757 0.0015117333528526819 0.04958572989142014