BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716120.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 = 768,650 number of mapped reads = 608,011 (79.1%) number of supplementary alignments = 2,480 (0.32%) number of secondary alignments = 0 number of mapped bases = 33,879,903 bp number of sequenced bases = 33,869,991 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 11,312 duplication rate = 1.31% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 41.5782 >>>>>>> ACTG content number of A's = 8,557,710 bp (25.27%) number of C's = 6,438,858 bp (19.01%) number of T's = 10,748,011 bp (31.73%) number of G's = 8,125,012 bp (23.99%) number of N's = 400 bp (0%) GC percentage = 43% >>>>>>> Mismatches and indels general error rate = 0.0054 number of mismatches = 178,788 number of insertions = 2,117 mapped reads with insertion percentage = 0.35% number of deletions = 6,114 mapped reads with deletion percentage = 1% homopolymer indels = 40.3% >>>>>>> Coverage mean coverageData = 0.0109X std coverageData = 0.1354X 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 0.01% 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 2494626 0.010008504652832942 0.1414493034330332 chr2 243199373 3417670 0.01405295563817099 0.1823650672988044 chr3 198022430 2598098 0.013120220774989986 0.12323639587774575 chr4 191154276 1746714 0.009137718687496167 0.10082515473780326 chr5 180915260 1762772 0.009743633566344818 0.10266073243049188 chr6 171115067 1841421 0.010761302509965414 0.11396977168412512 chr7 159138663 2176139 0.013674483365491139 0.2678388202460393 chr8 146364022 2669619 0.018239584861913676 0.1507750185191796 chr9 141213431 1219848 0.008638328460413939 0.10439706600984285 chr10 135534747 1636536 0.012074660086981237 0.15342994327410547 chr11 135006516 1114519 0.00825529784058719 0.10424388078246576 chr12 133851895 1488757 0.011122420044931004 0.11284643284896057 chr13 115169878 797565 0.006925118041715734 0.08643523841215284 chr14 107349540 1046699 0.00975038179017814 0.1031094555855659 chr15 102531392 834753 0.008141438282628602 0.09502314155894442 chr16 90354753 1072226 0.01186684667269247 0.11627786613174246 chr17 81195210 1469993 0.018104430051969815 0.14282103991083958 chr18 78077248 806740 0.010332587542019924 0.13716848523082464 chr19 59128983 753875 0.01274966965016124 0.1453742095684469 chr20 63025520 709434 0.011256297449033344 0.11108545283914613 chr21 48129895 356332 0.007403548252079087 0.09066486669641434 chr22 51304566 520893 0.010152955976666872 0.10507817441145963 chrMT 16571 6096 0.36787158288576427 0.6900875286655629 chrX 155270560 1259482 0.008111531252286332 0.09963746289449321 chrY 59373566 79096 0.00133217533203244 0.04240858938261206