BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524690.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 = 1,209,671 number of mapped reads = 1,112,030 (91.93%) number of supplementary alignments = 4,551 (0.38%) number of secondary alignments = 0 number of mapped bases = 65,851,320 bp number of sequenced bases = 65,831,285 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 35,261 duplication rate = 2.29% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8753 >>>>>>> ACTG content number of A's = 17,328,976 bp (26.32%) number of C's = 12,822,531 bp (19.48%) number of T's = 20,566,683 bp (31.24%) number of G's = 15,104,764 bp (22.94%) number of N's = 8,331 bp (0.01%) GC percentage = 42.42% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 332,070 number of insertions = 5,137 mapped reads with insertion percentage = 0.46% number of deletions = 12,481 mapped reads with deletion percentage = 1.11% homopolymer indels = 41.57% >>>>>>> Coverage mean coverageData = 0.0213X std coverageData = 0.2199X There is a 1.96% of reference with a coverageData >= 1X There is a 0.12% 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 5250190 0.021063899375400152 0.3715383287172754 chr2 243199373 5554145 0.022837826148507382 0.29003046764034857 chr3 198022430 4376876 0.022102930460958386 0.15857814205803952 chr4 191154276 4273223 0.022354838664451326 0.17687443830242622 chr5 180915260 3972468 0.021957617063369888 0.1584256459569324 chr6 171115067 3839639 0.02243892993946582 0.175528981173564 chr7 159138663 3629327 0.022806066932961475 0.25592839508353 chr8 146364022 3332815 0.022770725718373606 0.23821312398749542 chr9 141213431 2766605 0.019591656263914445 0.19008801566576233 chr10 135534747 3184798 0.02349801855608289 0.23286540233542283 chr11 135006516 2996781 0.02219730638778946 0.19101191074841556 chr12 133851895 2957246 0.022093418998662663 0.16001452397017626 chr13 115169878 2104969 0.018277079359240094 0.1429650444339155 chr14 107349540 1973274 0.018381764840352366 0.1469189171984737 chr15 102531392 1892411 0.018456893670184445 0.14535263928262293 chr16 90354753 1926794 0.02132476639054063 0.16493820004627274 chr17 81195210 1765622 0.021745396064620066 0.1626356046061115 chr18 78077248 1758283 0.022519787070363957 0.3231331441023657 chr19 59128983 1357947 0.0229658440091892 0.2908159950012941 chr20 63025520 1385166 0.021977859127540716 0.15975812365379025 chr21 48129895 878406 0.018250735847231747 0.1633893972784889 chr22 51304566 766583 0.014941808493224561 0.13003376364578012 chrMT 16571 12996 0.784261661939533 0.9634032357986515 chrX 155270560 3675986 0.023674713351970907 0.17746646672657324 chrY 59373566 218770 0.00368463635820695 0.14068819464526267