BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524935.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 = 2,518,867 number of mapped reads = 2,329,822 (92.49%) number of supplementary alignments = 8,922 (0.35%) number of secondary alignments = 0 number of mapped bases = 135,842,973 bp number of sequenced bases = 135,800,045 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 154,340 duplication rate = 5.04% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.9285 >>>>>>> ACTG content number of A's = 32,479,006 bp (23.92%) number of C's = 26,561,983 bp (19.56%) number of T's = 42,474,664 bp (31.28%) number of G's = 34,283,355 bp (25.25%) number of N's = 1,037 bp (0%) GC percentage = 44.81% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 671,729 number of insertions = 7,616 mapped reads with insertion percentage = 0.33% number of deletions = 25,486 mapped reads with deletion percentage = 1.09% homopolymer indels = 44.4% >>>>>>> Coverage mean coverageData = 0.0439X std coverageData = 0.3836X There is a 3.67% of reference with a coverageData >= 1X There is a 0.51% of reference with a coverageData >= 2X There is a 0.09% of reference with a coverageData >= 3X There is a 0.02% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0.01% 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 13107254 0.052586645310705164 0.7379319392282385 chr2 243199373 11801573 0.048526329876681054 0.46164993430404017 chr3 198022430 8437458 0.04260859741999934 0.2422484518067566 chr4 191154276 6176074 0.03230936879486808 0.2755432758515238 chr5 180915260 8361856 0.046219738456556955 0.24881409038077243 chr6 171115067 8788705 0.051361374273371264 0.28711376564968794 chr7 159138663 8193028 0.05148357944920022 0.47971481919061526 chr8 146364022 11870222 0.08110068196950751 0.485676501273013 chr9 141213431 4777241 0.033829933641368715 0.2981272782747272 chr10 135534747 5959287 0.043968702726836534 0.4265545569159614 chr11 135006516 8385476 0.06211163911525574 0.35304381663101664 chr12 133851895 4519447 0.03376453504823372 0.2233643471881262 chr13 115169878 3298038 0.02863628977708911 0.20091279975192086 chr14 107349540 2483925 0.02313866459045842 0.1886644178517863 chr15 102531392 3500127 0.03413712553517268 0.21549460214152533 chr16 90354753 4037418 0.04468406880598744 0.26742058487241166 chr17 81195210 3047101 0.03752808817170372 0.23606336595677194 chr18 78077248 3541557 0.04535965458208773 0.5167575696344209 chr19 59128983 2817327 0.04764714116594902 0.5026009830638436 chr20 63025520 2537365 0.04025932669813752 0.24654365470795878 chr21 48129895 1210681 0.025154449225372296 0.23401665945520944 chr22 51304566 2500363 0.04873568173249921 0.2588534973501599 chrMT 16571 7347 0.4433649146098606 0.8073644933746541 chrX 155270560 6091351 0.039230559869172885 0.26490343763075475 chrY 59373566 392752 0.006614930287326855 0.2326851624987025