BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716658.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 = 465,399 number of mapped reads = 427,260 (91.81%) number of supplementary alignments = 1,706 (0.37%) number of secondary alignments = 0 number of mapped bases = 24,992,150 bp number of sequenced bases = 24,984,087 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 7,947 duplication rate = 1.31% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8172 >>>>>>> ACTG content number of A's = 6,409,971 bp (25.66%) number of C's = 4,917,531 bp (19.68%) number of T's = 7,805,053 bp (31.24%) number of G's = 5,851,018 bp (23.42%) number of N's = 514 bp (0%) GC percentage = 43.1% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 125,022 number of insertions = 1,949 mapped reads with insertion percentage = 0.45% number of deletions = 4,953 mapped reads with deletion percentage = 1.15% homopolymer indels = 42.05% >>>>>>> Coverage mean coverageData = 0.0081X std coverageData = 0.1104X There is a 0.77% 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 2116002 0.00848945527802717 0.14845936754058353 chr2 243199373 1958626 0.008053581618403268 0.13486229850975592 chr3 198022430 1430061 0.007221712207046444 0.08758366723417178 chr4 191154276 1542794 0.008070936378111678 0.1006211687086262 chr5 180915260 1400471 0.0077410330118089545 0.09043534766827323 chr6 171115067 1319188 0.007709362028301108 0.09509118372271197 chr7 159138663 1428475 0.00897629132400088 0.12562584847959646 chr8 146364022 1314467 0.008980806772309113 0.1376540377682671 chr9 141213431 831934 0.005891323467666471 0.08471637579423796 chr10 135534747 1091758 0.00805518897674262 0.11693644965594154 chr11 135006516 895635 0.006634013131632846 0.09113044072165721 chr12 133851895 1247033 0.009316513598854914 0.09929610637846284 chr13 115169878 747005 0.00648611436403536 0.08265847720084409 chr14 107349540 833749 0.007766675106386111 0.09050807958757241 chr15 102531392 914831 0.00892244786845379 0.09669856451887483 chr16 90354753 858850 0.009505310694612822 0.10126028405661507 chr17 81195210 1086512 0.013381479030597988 0.12101531492925467 chr18 78077248 462428 0.005922698504947306 0.11683483445466832 chr19 59128983 644413 0.010898428609874788 0.13476140998599226 chr20 63025520 810492 0.01285974316435628 0.11767898115284962 chr21 48129895 315823 0.006561888406363654 0.0940773769528795 chr22 51304566 234231 0.0045655000765428945 0.06996170824289098 chrMT 16571 62693 3.7832961197272343 2.8612182493976244 chrX 155270560 1342272 0.008644729561096449 0.09740967303902853 chrY 59373566 102407 0.0017247911301133572 0.09047675246424705