BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524906.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 = 375,114 number of mapped reads = 346,451 (92.36%) number of supplementary alignments = 1,154 (0.31%) number of secondary alignments = 0 number of mapped bases = 20,079,625 bp number of sequenced bases = 20,073,173 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 6,860 duplication rate = 1.56% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7344 >>>>>>> ACTG content number of A's = 4,748,685 bp (23.66%) number of C's = 3,914,118 bp (19.5%) number of T's = 6,312,199 bp (31.45%) number of G's = 5,097,981 bp (25.4%) number of N's = 190 bp (0%) GC percentage = 44.9% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 100,429 number of insertions = 1,144 mapped reads with insertion percentage = 0.33% number of deletions = 3,720 mapped reads with deletion percentage = 1.06% homopolymer indels = 43.87% >>>>>>> Coverage mean coverageData = 0.0065X std coverageData = 0.0946X There is a 0.62% 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 2049762 0.00822369866833752 0.1376144306924829 chr2 243199373 1766085 0.007261881386511634 0.10815406959550662 chr3 198022430 1421643 0.0071792018712223665 0.08763071456306588 chr4 191154276 912083 0.004771449632651691 0.07683957003967258 chr5 180915260 1197806 0.006620812417924281 0.08399714422947574 chr6 171115067 1256217 0.007341358198457182 0.08982575615932781 chr7 159138663 1220820 0.0076714230029694295 0.10807778198028792 chr8 146364022 1767634 0.012076970664279778 0.13035052703664818 chr9 141213431 730625 0.005173905873018552 0.0830517545601505 chr10 135534747 859257 0.006339754336207231 0.09812005477994003 chr11 135006516 1007455 0.007462269450757473 0.09329217759007716 chr12 133851895 666336 0.004978158882248175 0.07378252365723888 chr13 115169878 472382 0.004101610665941662 0.065973407652541 chr14 107349540 378221 0.003523266145341657 0.06243379473153509 chr15 102531392 512166 0.004995211612849263 0.07291403466731808 chr16 90354753 591021 0.006541116879595698 0.08467467245000691 chr17 81195210 439995 0.005418977301739844 0.07708147989324182 chr18 78077248 523709 0.006707575041579334 0.10825635689422543 chr19 59128983 418241 0.007073367049117012 0.10556276835081695 chr20 63025520 386634 0.006134562634310673 0.08087464337131797 chr21 48129895 178547 0.0037096902039782135 0.06837668319896262 chr22 51304566 348410 0.006791013493808719 0.08526803452930096 chrMT 16571 4838 0.2919558264437873 0.6004587355318457 chrX 155270560 908924 0.005853807701859258 0.08061695910235446 chrY 59373566 60814 0.0010242605269826642 0.04602037619077051