BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524436.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 = 616,912 number of mapped reads = 569,082 (92.25%) number of supplementary alignments = 2,812 (0.46%) number of secondary alignments = 0 number of mapped bases = 33,179,422 bp number of sequenced bases = 33,170,378 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 14,831 duplication rate = 2.01% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.5033 >>>>>>> ACTG content number of A's = 8,235,624 bp (24.83%) number of C's = 6,401,809 bp (19.3%) number of T's = 10,503,704 bp (31.67%) number of G's = 8,025,963 bp (24.2%) number of N's = 3,278 bp (0.01%) GC percentage = 43.5% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 165,116 number of insertions = 2,408 mapped reads with insertion percentage = 0.42% number of deletions = 5,365 mapped reads with deletion percentage = 0.94% homopolymer indels = 40.6% >>>>>>> Coverage mean coverageData = 0.0107X std coverageData = 0.1366X There is a 1% of reference with a coverageData >= 1X There is a 0.05% 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 2778816 0.011148682353734236 0.23904966520020993 chr2 243199373 2688241 0.0110536510305888 0.16511885079495262 chr3 198022430 2248295 0.011353739068851948 0.1117098916417338 chr4 191154276 2164558 0.011323617997433654 0.12224087632133121 chr5 180915260 1990188 0.011000664067807215 0.10998678792330459 chr6 171115067 1283743 0.0075022207132700944 0.09293399236475956 chr7 159138663 1902016 0.011951941559292854 0.1533979017766529 chr8 146364022 1721018 0.01175847709350321 0.1239058763789398 chr9 141213431 1199663 0.008495388799100844 0.1049936091011205 chr10 135534747 1689541 0.012465740611888994 0.14297570766979947 chr11 135006516 1396121 0.010341137904780832 0.11742211872371112 chr12 133851895 1537920 0.011489714060454653 0.1134107762627889 chr13 115169878 1048391 0.009102996531784119 0.09972067642741354 chr14 107349540 921014 0.008579580313059562 0.09798746825573858 chr15 102531392 1018325 0.009931836290684516 0.10451537378096759 chr16 90354753 1024624 0.011340012185081176 0.11401264583049629 chr17 81195210 957155 0.011788318547362585 0.11737638338333382 chr18 78077248 910015 0.011655316027532118 0.1569003324006666 chr19 59128983 990246 0.016747218534098583 0.17977571922213983 chr20 63025520 978801 0.015530232832668418 0.13451662920886323 chr21 48129895 454866 0.009450799757614264 0.10965238335774678 chr22 51304566 257168 0.005012575293980657 0.07512068281676686 chrMT 16571 21792 1.3150684931506849 1.4119428516311123 chrX 155270560 1876025 0.012082296862972608 0.11850163183102212 chrY 59373566 120880 0.002035922854962089 0.07608323168328315