BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524910.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 = 7,172,021 number of mapped reads = 6,644,064 (92.64%) number of supplementary alignments = 27,650 (0.39%) number of secondary alignments = 0 number of mapped bases = 388,023,147 bp number of sequenced bases = 387,900,855 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,177,051 duplication rate = 11.19% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8067 >>>>>>> ACTG content number of A's = 91,742,765 bp (23.65%) number of C's = 76,242,966 bp (19.66%) number of T's = 127,465,854 bp (32.86%) number of G's = 92,446,169 bp (23.83%) number of N's = 3,101 bp (0%) GC percentage = 43.49% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 1,962,156 number of insertions = 27,254 mapped reads with insertion percentage = 0.41% number of deletions = 73,609 mapped reads with deletion percentage = 1.1% homopolymer indels = 43.5% >>>>>>> Coverage mean coverageData = 0.1253X std coverageData = 0.9876X There is a 7.37% of reference with a coverageData >= 1X There is a 2.67% of reference with a coverageData >= 2X There is a 1.14% of reference with a coverageData >= 3X There is a 0.53% of reference with a coverageData >= 4X There is a 0.26% of reference with a coverageData >= 5X There is a 0.14% of reference with a coverageData >= 6X There is a 0.08% of reference with a coverageData >= 7X There is a 0.05% of reference with a coverageData >= 8X There is a 0.03% of reference with a coverageData >= 9X There is a 0.02% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% of reference with a coverageData >= 13X There is a 0.01% of reference with a coverageData >= 14X There is a 0.01% of reference with a coverageData >= 15X There is a 0.01% of reference with a coverageData >= 16X There is a 0.01% of reference with a coverageData >= 17X There is a 0.01% 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 38618627 0.15493893995152774 1.8093022571564765 chr2 243199373 33954442 0.1396156642229501 1.3593738691748407 chr3 198022430 24418725 0.12331292470251981 0.556099656893939 chr4 191154276 17369952 0.09086875984924345 0.7969331422683764 chr5 180915260 23820990 0.13166932408023513 0.575337439079336 chr6 171115067 24841970 0.14517698783357283 0.66585602197527 chr7 159138663 23882277 0.15007212295103925 1.1939310110081784 chr8 146364022 34758373 0.23747894137536069 1.3378817141805666 chr9 141213431 14149596 0.1002000723288141 0.7773504248870946 chr10 135534747 17043800 0.1257522545122691 1.1548908471440256 chr11 135006516 19642028 0.14548948141140092 0.8057438611331661 chr12 133851895 12892845 0.09632172185533869 0.5185770403114323 chr13 115169878 9247329 0.08029294777927957 0.4542383660248909 chr14 107349540 6996894 0.06517861185059573 0.43664600764014744 chr15 102531392 9804331 0.09562272401412437 0.49422368469101335 chr16 90354753 11655727 0.12899960005424396 0.635329115846905 chr17 81195210 8873582 0.10928701335953192 0.5856920771550439 chr18 78077248 10355280 0.13262865002618945 1.3778980042766598 chr19 59128983 8226626 0.139130179188098 1.3172197685507114 chr20 63025520 7555195 0.11987517120049149 0.6012968990731445 chr21 48129895 3502067 0.07276282235812066 0.7063238533887404 chr22 51304566 7505516 0.1462933338136025 0.6306104940594636 chrMT 16571 37494 2.2626274817452177 2.450649797991442 chrX 155270560 17641741 0.1136193557877295 0.6340725832731354 chrY 59373566 1227740 0.020678225727590625 0.8026339494954491