BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524675.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 = 718,558 number of mapped reads = 664,454 (92.47%) number of supplementary alignments = 2,945 (0.41%) number of secondary alignments = 0 number of mapped bases = 39,213,189 bp number of sequenced bases = 39,201,199 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 16,056 duplication rate = 1.8% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.673 >>>>>>> ACTG content number of A's = 9,871,764 bp (25.18%) number of C's = 7,998,044 bp (20.4%) number of T's = 12,529,862 bp (31.96%) number of G's = 8,795,728 bp (22.44%) number of N's = 5,801 bp (0.01%) GC percentage = 42.84% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 196,643 number of insertions = 3,117 mapped reads with insertion percentage = 0.47% number of deletions = 7,605 mapped reads with deletion percentage = 1.14% homopolymer indels = 42.45% >>>>>>> Coverage mean coverageData = 0.0127X std coverageData = 0.148X There is a 1.19% 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 3140058 0.012597994690653147 0.22286115484192245 chr2 243199373 3263876 0.01342057736308391 0.1925327193856601 chr3 198022430 2617519 0.01321829552339096 0.12022816870040948 chr4 191154276 2625062 0.013732687831686276 0.12973313118362595 chr5 180915260 2367947 0.013088707939838795 0.11948999641378572 chr6 171115067 2218181 0.012963095762923087 0.12721346717221033 chr7 159138663 2222213 0.013964004460688476 0.1708842936241332 chr8 146364022 1995658 0.013634894509799683 0.15343366051474824 chr9 141213431 1621076 0.01147961626964506 0.12662544755239521 chr10 135534747 1919594 0.014163113463442699 0.15070031332413616 chr11 135006516 1748915 0.012954300665013827 0.1380830476770472 chr12 133851895 1753166 0.01309780485364066 0.12018055281433601 chr13 115169878 1205759 0.010469395478564283 0.10708384075300342 chr14 107349540 1149128 0.01070454517085029 0.11077965264106882 chr15 102531392 1139032 0.01110910500464092 0.11017614970868836 chr16 90354753 1142409 0.01264359607070145 0.12265047554884777 chr17 81195210 1106143 0.013623254376705227 0.12522092321063102 chr18 78077248 1059480 0.013569638110195688 0.20989000472131886 chr19 59128983 812101 0.013734398239185003 0.18625784322702976 chr20 63025520 814678 0.012926160704425763 0.11963175563069912 chr21 48129895 509740 0.010590922751857239 0.11386813109053426 chr22 51304566 461969 0.009004442216702506 0.09892512264385951 chrMT 16571 12759 0.76995956791986 1.059800442785188 chrX 155270560 2180617 0.014043982323500346 0.12834266933822425 chrY 59373566 126109 0.002123992350400513 0.0873207594737993