BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524475.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 = 821,960 number of mapped reads = 761,984 (92.7%) number of supplementary alignments = 1,686 (0.21%) number of secondary alignments = 0 number of mapped bases = 44,413,633 bp number of sequenced bases = 44,398,994 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 21,661 duplication rate = 2.19% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3741 >>>>>>> ACTG content number of A's = 11,008,413 bp (24.79%) number of C's = 8,254,364 bp (18.59%) number of T's = 14,259,350 bp (32.12%) number of G's = 10,875,928 bp (24.5%) number of N's = 939 bp (0%) GC percentage = 43.09% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 208,208 number of insertions = 2,916 mapped reads with insertion percentage = 0.38% number of deletions = 8,500 mapped reads with deletion percentage = 1.11% homopolymer indels = 41.67% >>>>>>> Coverage mean coverageData = 0.0143X std coverageData = 0.1603X There is a 1.33% of reference with a coverageData >= 1X There is a 0.08% 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 4384591 0.017591093584476965 0.2644418381333221 chr2 243199373 3539242 0.014552841795361043 0.16943789234909712 chr3 198022430 2459731 0.012421476698371998 0.11831511432377066 chr4 191154276 2500520 0.013081161731375551 0.12985283347471793 chr5 180915260 2440337 0.013488840023776878 0.1228982382098436 chr6 171115067 1927242 0.01126284221365498 0.12916350689740044 chr7 159138663 2109220 0.013253975873857881 0.1976326241610645 chr8 146364022 4043867 0.027628832172977593 0.19176068251893558 chr9 141213431 1898542 0.013444486027678204 0.14745417100955335 chr10 135534747 2336688 0.01724050881210558 0.1699141620546103 chr11 135006516 1540757 0.011412463973220374 0.1520540870391161 chr12 133851895 2045494 0.015281770945416948 0.13083237293052222 chr13 115169878 1003024 0.008709082769020559 0.09872598047738168 chr14 107349540 1064745 0.009918486842142034 0.10644656918369944 chr15 102531392 1221346 0.011911922545633634 0.11860280735573724 chr16 90354753 1381852 0.015293628216769073 0.1359124215533901 chr17 81195210 1537624 0.01893737327608365 0.1497562693494663 chr18 78077248 1043470 0.013364584776348675 0.21535646923440352 chr19 59128983 908392 0.015362888957518516 0.20052337561718567 chr20 63025520 1194276 0.018949086021027673 0.14645580738970207 chr21 48129895 618741 0.012855648241077608 0.1248378986634681 chr22 51304566 356654 0.006951700946071739 0.088272881033933 chrMT 16571 5590 0.3373363104218213 0.6442669946982753 chrX 155270560 2698486 0.017379250773617357 0.14756653987788867 chrY 59373566 153202 0.0025803065290031595 0.08020839165864108