BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525243.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 = 1,277,351 number of mapped reads = 1,167,137 (91.37%) number of supplementary alignments = 4,142 (0.32%) number of secondary alignments = 0 number of mapped bases = 67,381,740 bp number of sequenced bases = 67,360,558 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 36,557 duplication rate = 2.34% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.0021 >>>>>>> ACTG content number of A's = 16,594,638 bp (24.64%) number of C's = 13,330,099 bp (19.79%) number of T's = 22,117,066 bp (32.83%) number of G's = 15,317,378 bp (22.74%) number of N's = 1,377 bp (0%) GC percentage = 42.53% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 337,696 number of insertions = 4,687 mapped reads with insertion percentage = 0.4% number of deletions = 13,386 mapped reads with deletion percentage = 1.14% homopolymer indels = 43.99% >>>>>>> Coverage mean coverageData = 0.0218X std coverageData = 0.22X There is a 2% of reference with a coverageData >= 1X There is a 0.13% 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 7372437 0.029578409756499665 0.35438762803179624 chr2 243199373 5758147 0.02367665232426401 0.2899318124933699 chr3 198022430 5106309 0.025786518224223388 0.17204487956940073 chr4 191154276 2986277 0.015622339518055039 0.13989541027093996 chr5 180915260 3141771 0.017365981178149373 0.14029457825884697 chr6 171115067 4281168 0.025019234571552956 0.18485512349244795 chr7 159138663 5087736 0.03197045836686462 0.36840234633137253 chr8 146364022 3393984 0.02318864946195589 0.20197198516149567 chr9 141213431 2296510 0.016262688214126034 0.16164888053123608 chr10 135534747 3716439 0.0274205624923622 0.24621656198478356 chr11 135006516 3147580 0.023314282104724485 0.19068439073429236 chr12 133851895 3120694 0.023314529839118078 0.16458545875624375 chr13 115169878 1551702 0.013473158320094773 0.12724956928533931 chr14 107349540 2578411 0.024018836037862853 0.16728966919664237 chr15 102531392 1329768 0.012969374296605668 0.12600222654106916 chr16 90354753 1845588 0.020426020089944798 0.16650444986528562 chr17 81195210 1210065 0.014903157464584425 0.1344940707467171 chr18 78077248 1467597 0.018796730642965286 0.306269968928473 chr19 59128983 1115379 0.018863490346180994 0.26446987340359707 chr20 63025520 1162649 0.018447273421940826 0.14665888869353735 chr21 48129895 864952 0.01797120064359168 0.15031093517135044 chr22 51304566 766193 0.014934206830635698 0.12974726605868334 chrMT 16571 45844 2.7665198237885464 2.1140161387453 chrX 155270560 3844055 0.024757140052821345 0.1802753446184858 chrY 59373566 190485 0.003208245905256895 0.09298899463220428