BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525216.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 = 420,628 number of mapped reads = 356,977 (84.87%) number of supplementary alignments = 1,093 (0.26%) number of secondary alignments = 0 number of mapped bases = 21,074,285 bp number of sequenced bases = 21,067,290 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,577 duplication rate = 1.18% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3596 >>>>>>> ACTG content number of A's = 5,553,579 bp (26.36%) number of C's = 3,637,100 bp (17.26%) number of T's = 6,659,245 bp (31.61%) number of G's = 5,216,921 bp (24.76%) number of N's = 445 bp (0%) GC percentage = 42.03% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 107,874 number of insertions = 1,567 mapped reads with insertion percentage = 0.44% number of deletions = 4,447 mapped reads with deletion percentage = 1.24% homopolymer indels = 42.87% >>>>>>> Coverage mean coverageData = 0.0068X std coverageData = 0.0994X 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 2226587 0.008933125185674061 0.15013962197616812 chr2 243199373 1766532 0.007263719384671276 0.11486164336521604 chr3 198022430 1685536 0.008511843835064543 0.09435027813976371 chr4 191154276 1144312 0.005986326981249428 0.08027482110290657 chr5 180915260 902542 0.004988755509070932 0.07230495782560212 chr6 171115067 1295512 0.00757099899332652 0.09179232136122062 chr7 159138663 1539136 0.009671666023736796 0.15085215929310564 chr8 146364022 1212664 0.008285260157718268 0.09909114352396833 chr9 141213431 700543 0.00496088081026797 0.0784543673862825 chr10 135534747 1155117 0.008522663195733858 0.11043768863287867 chr11 135006516 963362 0.007135670399790185 0.09155810813515451 chr12 133851895 815077 0.0060893945505963885 0.0798908910699208 chr13 115169878 653002 0.005669902680629739 0.07699249701676149 chr14 107349540 789247 0.007352122794378066 0.08839961393407443 chr15 102531392 568836 0.005547920387153234 0.07613700309997334 chr16 90354753 653979 0.007237903688364905 0.09018082085023443 chr17 81195210 404238 0.004978594180617305 0.07311882875222271 chr18 78077248 427212 0.005471658017454714 0.10510298090742493 chr19 59128983 344319 0.005823184883798864 0.10441243245391872 chr20 63025520 452761 0.007183772541662489 0.08711964817271531 chr21 48129895 268103 0.005570404838822108 0.07812396655237448 chr22 51304566 165078 0.0032176083508824536 0.057726929903529366 chrMT 16571 2189 0.1320982439201014 0.35427481954223894 chrX 155270560 878483 0.0056577563705573035 0.07881049217612633 chrY 59373566 59918 0.0010091696361980347 0.04196562454853235