BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525215.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 = 1,651,331 number of mapped reads = 1,506,006 (91.2%) number of supplementary alignments = 7,425 (0.45%) number of secondary alignments = 0 number of mapped bases = 87,772,490 bp number of sequenced bases = 87,748,674 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 46,093 duplication rate = 2.22% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8402 >>>>>>> ACTG content number of A's = 23,157,272 bp (26.39%) number of C's = 15,919,490 bp (18.14%) number of T's = 27,118,161 bp (30.9%) number of G's = 21,551,327 bp (24.56%) number of N's = 2,424 bp (0%) GC percentage = 42.7% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 418,326 number of insertions = 5,997 mapped reads with insertion percentage = 0.4% number of deletions = 14,473 mapped reads with deletion percentage = 0.96% homopolymer indels = 41.41% >>>>>>> Coverage mean coverageData = 0.0284X std coverageData = 0.2644X There is a 2.56% of reference with a coverageData >= 1X There is a 0.2% of reference with a coverageData >= 2X There is a 0.03% of reference with a coverageData >= 3X There is a 0.01% 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 6983766 0.028019051555341963 0.49313942510020625 chr2 243199373 7455531 0.030656045318011572 0.26803835140143867 chr3 198022430 5983331 0.030215420546046222 0.18802846734282336 chr4 191154276 5784665 0.030261760924458734 0.20580719188503124 chr5 180915260 5367453 0.02966832648611289 0.18737366755046483 chr6 171115067 5144251 0.030063109521501107 0.20573226819529675 chr7 159138663 4788117 0.030087704079806175 0.29398985401440764 chr8 146364022 4497892 0.03073085816130415 0.31062368475586427 chr9 141213431 3675770 0.02602988946568404 0.24473628686097945 chr10 135534747 4123574 0.030424478528742152 0.2518273079755627 chr11 135006516 4030704 0.02985562563513601 0.2416615448864996 chr12 133851895 3996230 0.029855610187663015 0.19255851161759036 chr13 115169878 2850785 0.02475286984327621 0.1695999058068661 chr14 107349540 2626481 0.024466625567282355 0.18299146960122245 chr15 102531392 2428565 0.023686062898668148 0.16731167250120588 chr16 90354753 2463720 0.027267187593330036 0.18933733923971263 chr17 81195210 2273009 0.027994373067081173 0.1949436077571985 chr18 78077248 2387240 0.03057536044303201 0.44044381535395233 chr19 59128983 1617240 0.02735105388164718 0.35027029827209943 chr20 63025520 1822380 0.028914953815533773 0.19083386339974667 chr21 48129895 1177872 0.024472773107026308 0.18468411001504895 chr22 51304566 961990 0.018750572804767513 0.14744910932468655 chrMT 16571 12168 0.7342948524530807 0.9424032284491097 chrX 155270560 5060968 0.03259451115523767 0.2181188075917708 chrY 59373566 258788 0.004358640004880287 0.11775542721340244