BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9867833.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 = 1,378,844 number of mapped reads = 1,272,075 (92.26%) number of supplementary alignments = 5,694 (0.41%) number of secondary alignments = 0 number of mapped bases = 75,131,943 bp number of sequenced bases = 75,109,158 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 48,466 duplication rate = 2.84% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8357 >>>>>>> ACTG content number of A's = 18,805,606 bp (25.04%) number of C's = 14,077,077 bp (18.74%) number of T's = 24,004,320 bp (31.96%) number of G's = 18,212,274 bp (24.25%) number of N's = 9,881 bp (0.01%) GC percentage = 42.99% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 375,065 number of insertions = 5,490 mapped reads with insertion percentage = 0.43% number of deletions = 14,203 mapped reads with deletion percentage = 1.11% homopolymer indels = 44.08% >>>>>>> Coverage mean coverageData = 0.0243X std coverageData = 0.2438X There is a 2.21% of reference with a coverageData >= 1X There is a 0.16% 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 6066415 0.024338615389046515 0.4169049430292166 chr2 243199373 6331655 0.026034832746053175 0.3339758681249791 chr3 198022430 5001652 0.025258007388354944 0.1714401462219077 chr4 191154276 4809374 0.025159646441809128 0.19076123320163105 chr5 180915260 4543347 0.025113122021879195 0.1712720900382436 chr6 171115067 4299782 0.025128015173555698 0.18921644583384967 chr7 159138663 4119852 0.025888441704452425 0.27731300829494415 chr8 146364022 3821991 0.026112913185728115 0.2745576693843068 chr9 141213431 3132596 0.022183413984183983 0.20563605605993093 chr10 135534747 3674087 0.02710808173788822 0.2539007813676527 chr11 135006516 3407754 0.0252414039037938 0.21905042826417834 chr12 133851895 3385127 0.025290093950481613 0.17316949693546912 chr13 115169878 2339187 0.020310753476703344 0.15365704510632827 chr14 107349540 2236558 0.020834351036809286 0.15801640471152734 chr15 102531392 2129851 0.020772672236811143 0.15602193466239342 chr16 90354753 2202721 0.024378584710424697 0.177918844093284 chr17 81195210 2088578 0.02572292133981795 0.18240914598207345 chr18 78077248 2003144 0.025655924758003764 0.3550625543215192 chr19 59128983 1589513 0.026882129868528264 0.3080019769165098 chr20 63025520 1577975 0.02503708021766421 0.1722504069394532 chr21 48129895 995313 0.02067972514795638 0.17428036239115005 chr22 51304566 902526 0.017591533665833953 0.14355637175913089 chrMT 16571 5862 0.35375052803089735 0.672139893003139 chrX 155270560 4212868 0.02713243257446872 0.19228312375102774 chrY 59373566 254215 0.004281619197337752 0.17111670385535788