BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716308.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 = 394,210 number of mapped reads = 356,669 (90.48%) number of supplementary alignments = 1,491 (0.38%) number of secondary alignments = 0 number of mapped bases = 20,891,728 bp number of sequenced bases = 20,884,699 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 6,378 duplication rate = 1.31% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.159 >>>>>>> ACTG content number of A's = 5,385,618 bp (25.79%) number of C's = 3,751,901 bp (17.96%) number of T's = 6,542,787 bp (31.33%) number of G's = 5,203,963 bp (24.92%) number of N's = 430 bp (0%) GC percentage = 42.88% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 106,369 number of insertions = 1,539 mapped reads with insertion percentage = 0.43% number of deletions = 4,271 mapped reads with deletion percentage = 1.19% homopolymer indels = 41.86% >>>>>>> Coverage mean coverageData = 0.0067X std coverageData = 0.0977X There is a 0.65% of reference with a coverageData >= 1X There is a 0.02% 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 1662585 0.006670334434191841 0.1295233466294434 chr2 243199373 1772829 0.0072896117211617975 0.12077767837782127 chr3 198022430 1385668 0.006997530532273541 0.08597977749418467 chr4 191154276 1341497 0.0070178759694603954 0.09186230151188901 chr5 180915260 1285103 0.007103342194572199 0.08658457450770284 chr6 171115067 1167577 0.006823344200309374 0.0887037682619828 chr7 159138663 1137137 0.007145573417315942 0.1053492826227281 chr8 146364022 1065597 0.007280457215093474 0.11211964784679086 chr9 141213431 864079 0.006118957622380834 0.08676173979907026 chr10 135534747 1052671 0.007766797985759327 0.10784719533182589 chr11 135006516 936563 0.00693716886968626 0.09163005990653687 chr12 133851895 927302 0.006927821231070355 0.08555449800789895 chr13 115169878 655410 0.005690810925405339 0.07746725275206487 chr14 107349540 630910 0.005877156064199251 0.07979193086292646 chr15 102531392 603180 0.00588288121554031 0.07854976999671785 chr16 90354753 604419 0.006689399062382474 0.08541349441981763 chr17 81195210 580299 0.0071469610091531265 0.08839568203973061 chr18 78077248 539863 0.006914472702726408 0.1101809713056102 chr19 59128983 439500 0.007432903082402077 0.11322678950574458 chr20 63025520 444254 0.007048795472056398 0.08747350363646729 chr21 48129895 283362 0.005887442721410467 0.08300741602742719 chr22 51304566 254198 0.0049546857096500925 0.07236825064013228 chrMT 16571 4305 0.2597912014965904 0.5292778882344136 chrX 155270560 1171714 0.007546272777015811 0.09099313164665236 chrY 59373566 81706 0.0013761342884474885 0.06761940104529081