BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525266.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 = 636,089 number of mapped reads = 585,318 (92.02%) number of supplementary alignments = 2,508 (0.39%) number of secondary alignments = 0 number of mapped bases = 33,738,955 bp number of sequenced bases = 33,727,931 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,156 duplication rate = 1.53% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8562 >>>>>>> ACTG content number of A's = 8,901,413 bp (26.39%) number of C's = 6,638,242 bp (19.68%) number of T's = 10,550,036 bp (31.28%) number of G's = 7,637,530 bp (22.64%) number of N's = 710 bp (0%) GC percentage = 42.33% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 169,073 number of insertions = 2,638 mapped reads with insertion percentage = 0.45% number of deletions = 7,059 mapped reads with deletion percentage = 1.2% homopolymer indels = 43.39% >>>>>>> Coverage mean coverageData = 0.0109X std coverageData = 0.1352X There is a 1.03% of reference with a coverageData >= 1X There is a 0.04% 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 3796573 0.0152319500138778 0.212242051680102 chr2 243199373 2694399 0.01107897181955317 0.1503210158679124 chr3 198022430 1899902 0.009594377768215449 0.10296061651381483 chr4 191154276 1898488 0.009931705634458316 0.10506530688537308 chr5 180915260 1516658 0.008383250810351763 0.09501307043688963 chr6 171115067 2068308 0.012087234842972652 0.1198104622976925 chr7 159138663 2461416 0.015467114990151703 0.22152414674270976 chr8 146364022 2222356 0.01518375875186048 0.14535811116159975 chr9 141213431 1089011 0.00771180894259272 0.10389059200569334 chr10 135534747 2244108 0.016557436743509027 0.15767808673903305 chr11 135006516 1524050 0.011288714390644671 0.12205150917719718 chr12 133851895 1469080 0.010975414281583388 0.1091285098389092 chr13 115169878 1003248 0.008711027722022941 0.09658094812384017 chr14 107349540 748666 0.006974096023140854 0.08782711459353595 chr15 102531392 903323 0.00881020907235903 0.0988352264069038 chr16 90354753 875921 0.009694243754946682 0.10697476971196354 chr17 81195210 563167 0.006935963340694605 0.08767441875482694 chr18 78077248 695910 0.008913095912396913 0.1718017358035354 chr19 59128983 630991 0.010671433330757608 0.15229667072985797 chr20 63025520 590414 0.009367856068462426 0.10092367292890654 chr21 48129895 463458 0.009629316664829624 0.10292344530237998 chr22 51304566 367338 0.0071599475181214865 0.08723888491792013 chrMT 16571 18552 1.1195461951602197 1.2435739639199432 chrX 155270560 1896208 0.012212282869334663 0.11882510648787796 chrY 59373566 97410 0.0016406290974673814 0.049869884256536594