BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524362.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 = 708,494 number of mapped reads = 651,469 (91.95%) number of supplementary alignments = 3,098 (0.44%) number of secondary alignments = 0 number of mapped bases = 38,516,113 bp number of sequenced bases = 38,505,443 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 18,761 duplication rate = 2.16% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3098 >>>>>>> ACTG content number of A's = 9,879,750 bp (25.66%) number of C's = 7,483,687 bp (19.44%) number of T's = 11,491,023 bp (29.84%) number of G's = 9,645,621 bp (25.05%) number of N's = 5,362 bp (0.01%) GC percentage = 44.49% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 196,490 number of insertions = 3,053 mapped reads with insertion percentage = 0.47% number of deletions = 6,612 mapped reads with deletion percentage = 1.01% homopolymer indels = 40.79% >>>>>>> Coverage mean coverageData = 0.0124X std coverageData = 0.153X There is a 1.16% of reference with a coverageData >= 1X There is a 0.06% 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 3113740 0.012492406187425307 0.2616607335383342 chr2 243199373 3217816 0.013231185427439405 0.1763088942898398 chr3 198022430 2490860 0.012578676062100641 0.1180128125777007 chr4 191154276 2399808 0.012554299334637954 0.1296700125836558 chr5 180915260 2271645 0.012556403478623086 0.11787946854912398 chr6 171115067 2150149 0.012565515344128054 0.12185248547625518 chr7 159138663 2092792 0.013150745146074276 0.17849418735298397 chr8 146364022 1986501 0.013572331320602819 0.15192066952359778 chr9 141213431 1598340 0.011318611754430073 0.13583253455590052 chr10 135534747 1954818 0.014423002538234716 0.15967108090605112 chr11 135006516 1781915 0.013198733311509201 0.14054978895804887 chr12 133851895 1703212 0.012724601321482973 0.12094663031230746 chr13 115169878 1166044 0.01012455704780724 0.10554833243122626 chr14 107349540 1172181 0.01091929224848099 0.11371892071828506 chr15 102531392 1123192 0.010954615733686713 0.11002451892449086 chr16 90354753 1171764 0.01296848213397252 0.12607407655851008 chr17 81195210 1110856 0.013681299672727 0.1308470177871596 chr18 78077248 1011016 0.012948919511097522 0.2159902666460717 chr19 59128983 843927 0.014272645277866524 0.1801134966489748 chr20 63025520 853598 0.01354368833450323 0.12503656808476496 chr21 48129895 521204 0.010829111511670658 0.1214995319850602 chr22 51304566 503409 0.00981216759537543 0.10480713985501035 chrMT 16571 10228 0.6172228592118761 0.8451846171665016 chrX 155270560 2122518 0.013669803213178339 0.12941898360827805 chrY 59373566 144580 0.002435090390225172 0.0870288289376593