BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714093.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 641,920 number of mapped reads = 292,189 (45.52%) number of supplementary alignments = 5,831 (0.91%) number of secondary alignments = 0 number of mapped bases = 37,163,417 bp number of sequenced bases = 36,358,493 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 278,808 duplication rate = 38.02% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 41.3797 >>>>>>> ACTG content number of A's = 9,388,000 bp (25.82%) number of C's = 6,706,678 bp (18.45%) number of T's = 9,410,243 bp (25.88%) number of G's = 10,853,184 bp (29.85%) number of N's = 388 bp (0%) GC percentage = 48.3% >>>>>>> Mismatches and indels general error rate = 0.0418 number of mismatches = 1,477,703 number of insertions = 19,929 mapped reads with insertion percentage = 6.15% number of deletions = 97,354 mapped reads with deletion percentage = 31.78% homopolymer indels = 45.62% >>>>>>> Coverage mean coverageData = 0.012X std coverageData = 16.4943X There is a 0.02% of reference with a coverageData >= 1X There is a 0.02% of reference with a coverageData >= 2X There is a 0.01% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0.01% 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 12294210 0.04932469155212255 45.71050230417698 chr2 243199373 4746726 0.019517838148373844 17.79235871176376 chr3 198022430 157932 7.975460153680571E-4 0.1010109442289469 chr4 191154276 579866 0.0030334974039503046 1.4611297812660105 chr5 180915260 831255 0.0045947202021543124 1.7725907100027674 chr6 171115067 260318 0.0015213037902734772 0.35042799962163707 chr7 159138663 195262 0.001226992839571613 0.48690968583894534 chr8 146364022 236136 0.0016133473019756181 0.5144519366446975 chr9 141213431 137286 9.721879783517192E-4 0.1249410775788925 chr10 135534747 132744 9.794093613499717E-4 0.14921210348561495 chr11 135006516 793962 0.0058809161477806 3.6675336936002747 chr12 133851895 1271015 0.009495681775741763 4.44849346130187 chr13 115169878 2977875 0.025856370187350552 18.900877159469466 chr14 107349540 158350 0.0014750878299059317 0.32302711746938245 chr15 102531392 1830690 0.01785492193454274 13.760294365924297 chr16 90354753 64131 7.097689703163706E-4 0.2773545209063124 chr17 81195210 122829 0.0015127616518265056 0.4298447373499944 chr18 78077248 431014 0.005520353381307702 3.3687411794794695 chr19 59128983 78870 0.0013338636316474444 0.45620355304029253 chr20 63025520 315104 0.00499962554850797 2.383698116902314 chr21 48129895 23464 4.8751404922034425E-4 0.09425407503564645 chr22 51304566 252769 0.0049268324382668 2.659413570493303 chrMT 16571 6212819 374.92118761692115 3137.6097773255397 chrX 155270560 3020264 0.019451620448847483 8.503658164451783 chrY 59373566 38526 6.488746187150019E-4 0.24008548325780177