BamQC report ----------------------------------- >>>>>>> Input bam file = SRR6237263.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP116771/SRP116771.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 = 2,599 number of mapped reads = 1,179 (45.36%) number of supplementary alignments = 12 (0.46%) number of secondary alignments = 0 number of mapped bases = 77,301 bp number of sequenced bases = 77,264 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8 duplication rate = 0.68% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 42.1555 >>>>>>> ACTG content number of A's = 21,048 bp (27.24%) number of C's = 14,965 bp (19.37%) number of T's = 23,589 bp (30.53%) number of G's = 17,654 bp (22.85%) number of N's = 8 bp (0.01%) GC percentage = 42.22% >>>>>>> Mismatches and indels general error rate = 0.0078 number of mismatches = 590 number of insertions = 8 mapped reads with insertion percentage = 0.59% number of deletions = 22 mapped reads with deletion percentage = 1.87% homopolymer indels = 36.67% >>>>>>> Coverage mean coverageData = 0X std coverageData = 0.005X There is a 0% of reference with a coverageData >= 1X There is a 0% 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 6023 2.4164433275373866E-5 0.004914857647084681 chr2 243199373 7701 3.1665377689933435E-5 0.005735671874092535 chr3 198022430 4743 2.3951832123259978E-5 0.005025852345672398 chr4 191154276 5124 2.680557352533406E-5 0.00517430849582099 chr5 180915260 5555 3.0704983095400574E-5 0.00554062389890814 chr6 171115067 3920 2.2908561289930128E-5 0.004798428642587772 chr7 159138663 5064 3.1821305423434406E-5 0.005638719634393225 chr8 146364022 3587 2.4507388844507155E-5 0.004950433135837629 chr9 141213431 4011 2.8403813798703043E-5 0.005329447159139936 chr10 135534747 3646 2.690085074641413E-5 0.005251563558961381 chr11 135006516 3802 2.816160369622456E-5 0.005514757817712105 chr12 133851895 2925 2.1852510941290745E-5 0.004792202524041624 chr13 115169878 2482 2.1550773892458233E-5 0.0046422310860838095 chr14 107349540 2322 2.1630274335595664E-5 0.0047104913852230495 chr15 102531392 2559 2.4958209871958043E-5 0.00499575689557829 chr16 90354753 1874 2.0740469513540698E-5 0.004546827155567233 chr17 81195210 1748 2.1528363557406898E-5 0.004637161756141959 chr18 78077248 1279 1.6381212616510255E-5 0.004047337924164903 chr19 59128983 1130 1.9110763329042883E-5 0.004369609430399929 chr20 63025520 2047 3.247890695705486E-5 0.005697542147248345 chr21 48129895 721 1.4980294471866186E-5 0.0038704095471466223 chr22 51304566 880 1.71524694312783E-5 0.0041415184683966716 chrMT 16571 0 0.0 0.0 chrX 155270560 4055 2.6115704097415507E-5 0.0051102859085784035 chrY 59373566 103 1.7347787397509525E-6 0.0013171088528643622