BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524838.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 = 830,576 number of mapped reads = 764,066 (91.99%) number of supplementary alignments = 6,357 (0.77%) number of secondary alignments = 0 number of mapped bases = 44,729,186 bp number of sequenced bases = 44,715,668 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 15,369 duplication rate = 1.36% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8848 >>>>>>> ACTG content number of A's = 12,249,119 bp (27.39%) number of C's = 7,801,169 bp (17.45%) number of T's = 14,059,962 bp (31.44%) number of G's = 10,599,374 bp (23.7%) number of N's = 6,044 bp (0.01%) GC percentage = 41.15% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 215,328 number of insertions = 3,571 mapped reads with insertion percentage = 0.47% number of deletions = 8,631 mapped reads with deletion percentage = 1.12% homopolymer indels = 44.04% >>>>>>> Coverage mean coverageData = 0.0144X std coverageData = 0.1681X There is a 1.36% of reference with a coverageData >= 1X There is a 0.05% 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 3761560 0.015091476943602078 0.2965044727130036 chr2 243199373 2804981 0.011533668715502815 0.16138580210006576 chr3 198022430 3260119 0.01646338245621973 0.13347117506462075 chr4 191154276 2454871 0.012842354622503972 0.12259687071368887 chr5 180915260 2726327 0.01506963536409256 0.12789848888231226 chr6 171115067 2888679 0.016881499979192364 0.1427456023207877 chr7 159138663 2052261 0.012896055309953183 0.21533877004850688 chr8 146364022 4844758 0.03310074384263641 0.2280947993835829 chr9 141213431 1835970 0.013001383699826683 0.14744782761061548 chr10 135534747 2229952 0.016452991202322458 0.17020626292019567 chr11 135006516 2155453 0.015965547914739166 0.1559136414003363 chr12 133851895 1796411 0.013420885823095743 0.12145754884064881 chr13 115169878 1167493 0.010137138462541394 0.10448103070177309 chr14 107349540 969097 0.00902749094220618 0.10297389811338277 chr15 102531392 1318663 0.012861066004058543 0.1187655057023195 chr16 90354753 1285921 0.014231913178933709 0.13106557389584483 chr17 81195210 1123900 0.013841949543575292 0.13147560074072612 chr18 78077248 1079068 0.013820517854317815 0.24333030635211542 chr19 59128983 661964 0.011195254279952693 0.2048144644916566 chr20 63025520 931866 0.014785534494598379 0.12810896156018534 chr21 48129895 692919 0.014396852517546526 0.12768539421671177 chr22 51304566 267195 0.005208015988284551 0.07399994033335051 chrMT 16571 6500 0.3922515237463038 0.6480994480430297 chrX 155270560 2297335 0.01479568953702492 0.13557186102203214 chrY 59373566 115923 0.0019524345227975696 0.06012185374033354