BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751205.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 4,778,421 number of mapped reads = 4,502,156 (94.22%) number of supplementary alignments = 170,846 (3.58%) number of secondary alignments = 0 number of mapped bases = 442,168,383 bp number of sequenced bases = 442,031,477 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 138,199 duplication rate = 1.61% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.2026 >>>>>>> ACTG content number of A's = 129,716,532 bp (29.35%) number of C's = 91,351,922 bp (20.67%) number of T's = 130,363,818 bp (29.49%) number of G's = 90,596,867 bp (20.5%) number of N's = 2,338 bp (0%) GC percentage = 41.16% >>>>>>> Mismatches and indels general error rate = 0.0044 number of mismatches = 1,701,436 number of insertions = 177,791 mapped reads with insertion percentage = 3.83% number of deletions = 61,903 mapped reads with deletion percentage = 1.35% homopolymer indels = 51.16% >>>>>>> Coverage mean coverageData = 0.1428X std coverageData = 1.3525X There is a 11.37% of reference with a coverageData >= 1X There is a 2.01% of reference with a coverageData >= 2X There is a 0.4% of reference with a coverageData >= 3X There is a 0.1% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.02% of reference with a coverageData >= 6X There is a 0.01% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% of reference with a coverageData >= 13X There is a 0.01% 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 52955505 0.212458868858746 3.7746544104190916 chr2 243199373 33270946 0.13680522934571876 0.5730495714006445 chr3 198022430 29411983 0.1485285429534422 0.49522434300185003 chr4 191154276 20566577 0.10759150896525066 0.5039817185849341 chr5 180915260 36234632 0.2002851058556365 0.5197326687219072 chr6 171115067 25316401 0.14794957243595622 0.78770332158096 chr7 159138663 24955820 0.1568180826051052 0.7870497512800325 chr8 146364022 20769570 0.1419035205250099 0.5327749321066093 chr9 141213431 19131139 0.1354767663707569 0.6325684186745457 chr10 135534747 22405699 0.16531331998575982 1.9480623754617081 chr11 135006516 20084851 0.14876949346652277 0.659238150277651 chr12 133851895 23416269 0.174941632316823 0.4831373513707429 chr13 115169878 13006817 0.11293592756953341 0.38624692072869954 chr14 107349540 9426082 0.08780738138235152 0.36269181845342113 chr15 102531392 10586955 0.10325574239741132 0.36780218525245073 chr16 90354753 12307720 0.13621552371461854 0.895330805515701 chr17 81195210 12074405 0.1487083412925467 0.640786496132994 chr18 78077248 9136933 0.1170242706300304 1.2191163009932457 chr19 59128983 8286655 0.14014540043754853 2.5583369083781284 chr20 63025520 7851214 0.12457198290470273 0.4242430406987685 chr21 48129895 5589770 0.11613925191401311 0.4634943865445517 chr22 51304566 3325333 0.06481553708104655 0.2923880987340408 chrMT 16571 1838728 110.96059380846056 43.13124707875185 chrX 155270560 19190957 0.12359688146935259 0.4533089252281483 chrY 59373566 1027422 0.017304367401479642 0.687002056601528