BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524764.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 = 1,269,937 number of mapped reads = 1,159,479 (91.3%) number of supplementary alignments = 4,528 (0.36%) number of secondary alignments = 0 number of mapped bases = 66,170,608 bp number of sequenced bases = 66,149,256 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 41,716 duplication rate = 2.78% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.603 >>>>>>> ACTG content number of A's = 16,503,933 bp (24.95%) number of C's = 11,592,354 bp (17.52%) number of T's = 20,948,239 bp (31.67%) number of G's = 17,095,977 bp (25.84%) number of N's = 8,753 bp (0.01%) GC percentage = 43.37% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 332,084 number of insertions = 3,949 mapped reads with insertion percentage = 0.34% number of deletions = 13,114 mapped reads with deletion percentage = 1.12% homopolymer indels = 43.73% >>>>>>> Coverage mean coverageData = 0.0214X std coverageData = 0.2042X There is a 1.93% of reference with a coverageData >= 1X There is a 0.15% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 5295003 0.021243690301578026 0.2660010724726075 chr2 243199373 5588929 0.022980852833037527 0.31151913671717385 chr3 198022430 4321126 0.021821396697333732 0.16136927141132956 chr4 191154276 4285232 0.022417662265635116 0.18307214206802086 chr5 180915260 3936187 0.021757075660726464 0.1596755015675701 chr6 171115067 3745876 0.0218909770230812 0.17154597553369244 chr7 159138663 3622170 0.022761093575355724 0.24250557385168783 chr8 146364022 3325392 0.022720009702930956 0.1970322589700197 chr9 141213431 2812869 0.019919273826014466 0.18048766140671962 chr10 135534747 3237624 0.02388777838645318 0.24599074744053556 chr11 135006516 2990092 0.022147760631049836 0.182826915063624 chr12 133851895 3028333 0.02262450598850319 0.16549150176294986 chr13 115169878 2026379 0.017594696071484943 0.14332304244655242 chr14 107349540 1991487 0.018551425558041516 0.15095869535037526 chr15 102531392 1922132 0.018746765868544922 0.14936294287151425 chr16 90354753 1978678 0.021898991854916585 0.17523748338493614 chr17 81195210 1873457 0.02307349165055426 0.1716563819594077 chr18 78077248 1726572 0.022113638021667978 0.2603171024096589 chr19 59128983 1442256 0.024391692987515107 0.23555564222659656 chr20 63025520 1404170 0.022279387778157165 0.1675303754490149 chr21 48129895 870793 0.018092559728210503 0.15921590402305566 chr22 51304566 818980 0.015963101607759433 0.13817096294317063 chrMT 16571 29933 1.8063484400458631 1.7160158771082041 chrX 155270560 3662986 0.023590988529957 0.176533595135843 chrY 59373566 233952 0.0039403393759438335 0.1204179047119815