BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524455.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 = 402,109 number of mapped reads = 370,385 (92.11%) number of supplementary alignments = 1,284 (0.32%) number of secondary alignments = 0 number of mapped bases = 21,612,475 bp number of sequenced bases = 21,605,127 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 6,504 duplication rate = 1.34% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8001 >>>>>>> ACTG content number of A's = 5,623,234 bp (26.03%) number of C's = 3,960,177 bp (18.33%) number of T's = 6,662,161 bp (30.84%) number of G's = 5,359,111 bp (24.8%) number of N's = 444 bp (0%) GC percentage = 43.13% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 109,666 number of insertions = 1,624 mapped reads with insertion percentage = 0.44% number of deletions = 4,538 mapped reads with deletion percentage = 1.22% homopolymer indels = 44.24% >>>>>>> Coverage mean coverageData = 0.007X std coverageData = 0.0995X There is a 0.67% of reference with a coverageData >= 1X There is a 0.02% of reference with a coverageData >= 2X There is a 0% 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 1707225 0.006849431279852257 0.1382828160513828 chr2 243199373 1845149 0.007586980908869366 0.11517028529201252 chr3 198022430 1462212 0.007384072602280459 0.08851772898313201 chr4 191154276 1417901 0.007417574064626208 0.09020396061889796 chr5 180915260 1305267 0.007214797690366197 0.08722247424392597 chr6 171115067 1245620 0.007279429110704787 0.09011656300553487 chr7 159138663 1219111 0.007660683940771828 0.11767228424704955 chr8 146364022 1112634 0.007601827175806907 0.11074471312650158 chr9 141213431 910965 0.006450979864656075 0.09095861599900251 chr10 135534747 1023841 0.0075540850052274785 0.10232266175422451 chr11 135006516 961035 0.007118434194687314 0.09084267899930937 chr12 133851895 989921 0.007395644267867855 0.08891970775911319 chr13 115169878 685623 0.005953145144427434 0.07922533397627288 chr14 107349540 659356 0.006142140897855734 0.08105117197512239 chr15 102531392 608898 0.005938649501608249 0.07955856818059485 chr16 90354753 618512 0.006845373148217228 0.08771806284337136 chr17 81195210 565640 0.006966420802409403 0.08626074765484204 chr18 78077248 575989 0.007377168314129105 0.13165339209536575 chr19 59128983 426771 0.007217627943981381 0.11243911401007499 chr20 63025520 447679 0.007103138538166761 0.08674404507900169 chr21 48129895 282061 0.005860411704617266 0.07977215288304593 chr22 51304566 244366 0.004763045846640629 0.07090944815452743 chrMT 16571 801 0.04833745700319836 0.2144783141803905 chrX 155270560 1224044 0.007883297387476415 0.09312062641613546 chrY 59373566 71854 0.0012102018598647082 0.047403193169394384