BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524783.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 = 735,269 number of mapped reads = 674,361 (91.72%) number of supplementary alignments = 2,408 (0.33%) number of secondary alignments = 0 number of mapped bases = 38,717,993 bp number of sequenced bases = 38,704,906 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 16,369 duplication rate = 1.85% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7207 >>>>>>> ACTG content number of A's = 9,370,314 bp (24.21%) number of C's = 7,496,639 bp (19.37%) number of T's = 12,229,206 bp (31.6%) number of G's = 9,603,943 bp (24.81%) number of N's = 4,804 bp (0.01%) GC percentage = 44.18% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 197,171 number of insertions = 2,688 mapped reads with insertion percentage = 0.4% number of deletions = 7,961 mapped reads with deletion percentage = 1.17% homopolymer indels = 41.08% >>>>>>> Coverage mean coverageData = 0.0125X std coverageData = 0.1404X There is a 1.17% 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 3136254 0.012582732943321333 0.1785904471177518 chr2 243199373 3162734 0.013004696356680162 0.1950297348216142 chr3 198022430 2429061 0.012266595253881088 0.11710465115897543 chr4 191154276 2434445 0.012735498524762271 0.12910118655324712 chr5 180915260 2293254 0.012675846139236679 0.118310497505294 chr6 171115067 2204890 0.012885422883304602 0.12468199410631792 chr7 159138663 2121771 0.013332844200155182 0.16025868925996906 chr8 146364022 1939945 0.013254247686634356 0.1329568004899632 chr9 141213431 1661699 0.011767287206554736 0.13136501696309963 chr10 135534747 1883997 0.013900472326849144 0.1654649311910683 chr11 135006516 1772359 0.013127951542724057 0.13354295596330787 chr12 133851895 1786563 0.013347311967454775 0.12235901512142328 chr13 115169878 1245207 0.010811915594805092 0.10916819721001692 chr14 107349540 1183402 0.01102381994370912 0.11197053631926548 chr15 102531392 1139521 0.011113874275694999 0.11080415314663974 chr16 90354753 1146279 0.012686427243069327 0.12406692496911155 chr17 81195210 1094256 0.013476854114916385 0.12562519746342143 chr18 78077248 1014639 0.012995322273653907 0.17157603957049128 chr19 59128983 860063 0.014545540213333282 0.15587298787449688 chr20 63025520 859730 0.013640982256076586 0.12501610675488747 chr21 48129895 517548 0.010753150406831346 0.11494898099654711 chr22 51304566 492832 0.009606006607676985 0.10332090475421081 chrMT 16571 5485 0.33099993965361174 0.6706636361183858 chrX 155270560 2201425 0.014177993561689995 0.12980700312938212 chrY 59373566 130634 0.0022002047173653003 0.07262065486188671