BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524681.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 = 1,225,390 number of mapped reads = 1,120,002 (91.4%) number of supplementary alignments = 4,187 (0.34%) number of secondary alignments = 0 number of mapped bases = 65,767,513 bp number of sequenced bases = 65,747,226 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 35,463 duplication rate = 2.31% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6282 >>>>>>> ACTG content number of A's = 16,605,228 bp (25.26%) number of C's = 13,261,871 bp (20.17%) number of T's = 21,182,310 bp (32.22%) number of G's = 14,689,156 bp (22.34%) number of N's = 8,661 bp (0.01%) GC percentage = 42.51% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 337,081 number of insertions = 4,605 mapped reads with insertion percentage = 0.41% number of deletions = 12,762 mapped reads with deletion percentage = 1.13% homopolymer indels = 44.07% >>>>>>> Coverage mean coverageData = 0.0212X std coverageData = 0.2201X There is a 1.95% of reference with a coverageData >= 1X There is a 0.12% 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 5283163 0.021196187912406444 0.3732340160609411 chr2 243199373 5623265 0.023122037407555324 0.30725328244434 chr3 198022430 4426932 0.02235570990619598 0.15938883847752364 chr4 191154276 4402979 0.023033641162178344 0.17700121876260508 chr5 180915260 3950113 0.021834050925278497 0.15746905118503912 chr6 171115067 3767482 0.022017242935129726 0.17571425036459137 chr7 159138663 3603959 0.022646658782096214 0.25051235695039353 chr8 146364022 3291508 0.02248850472283414 0.23922218656424765 chr9 141213431 2746807 0.019451457135121943 0.18388097874091958 chr10 135534747 3212420 0.023701818693032273 0.22416814294382986 chr11 135006516 3051324 0.02260130911014695 0.19186844133151404 chr12 133851895 2925473 0.02185604469776091 0.15932513680032437 chr13 115169878 2015423 0.017499567030886322 0.14172178544455466 chr14 107349540 1937869 0.018051954391234467 0.14805439183675345 chr15 102531392 1849184 0.01803529596087021 0.14368275768936675 chr16 90354753 1863223 0.02062119521260824 0.1642449565774441 chr17 81195210 1778662 0.021905996671478526 0.16388975675880077 chr18 78077248 1767846 0.022642268334047838 0.30867246308714125 chr19 59128983 1386058 0.023441262299404 0.29000198798893206 chr20 63025520 1376443 0.02183945487478723 0.1588505043789733 chr21 48129895 850804 0.017677246127380912 0.1530364037764978 chr22 51304566 768847 0.01498593711912503 0.1307866041740855 chrMT 16571 15978 0.9642145917566833 1.0678667616807669 chrX 155270560 3661121 0.023578977238183463 0.1746448182920217 chrY 59373566 210630 0.0035475383102305156 0.1252490443544796