BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524671.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 = 560,596 number of mapped reads = 511,696 (91.28%) number of supplementary alignments = 1,982 (0.35%) number of secondary alignments = 0 number of mapped bases = 30,141,438 bp number of sequenced bases = 30,132,487 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,139 duplication rate = 1.46% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7489 >>>>>>> ACTG content number of A's = 7,838,065 bp (26.01%) number of C's = 5,615,779 bp (18.64%) number of T's = 9,673,550 bp (32.1%) number of G's = 7,001,340 bp (23.24%) number of N's = 3,753 bp (0.01%) GC percentage = 41.87% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 152,451 number of insertions = 2,014 mapped reads with insertion percentage = 0.39% number of deletions = 5,565 mapped reads with deletion percentage = 1.08% homopolymer indels = 43.94% >>>>>>> Coverage mean coverageData = 0.0097X std coverageData = 0.1247X There is a 0.93% of reference with a coverageData >= 1X There is a 0.03% 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 2420477 0.009711016928619809 0.18913489599282293 chr2 243199373 2600329 0.0106921698354872 0.16193953358539262 chr3 198022430 1973164 0.009964345958182616 0.10282839995097191 chr4 191154276 1914698 0.010016506248596815 0.10752265301115695 chr5 180915260 1812864 0.01002051457682453 0.10318447569470039 chr6 171115067 1738410 0.010159304089802916 0.10957788825232544 chr7 159138663 1685362 0.01059052506932272 0.13645587000051942 chr8 146364022 1543178 0.010543424394281813 0.12627864385637047 chr9 141213431 1263154 0.00894499900650385 0.10956029343614339 chr10 135534747 1458089 0.010758045684034073 0.1271770822623477 chr11 135006516 1397528 0.010351559623981408 0.11486762890639966 chr12 133851895 1369850 0.010234072517240043 0.10460685082333876 chr13 115169878 960509 0.00833993242573375 0.09409286873602546 chr14 107349540 911013 0.008486417361453063 0.09627360265995212 chr15 102531392 856854 0.00835699177867399 0.09411608337546734 chr16 90354753 858988 0.009506838007736019 0.10383446708475833 chr17 81195210 798592 0.009835457042355085 0.10467623023607331 chr18 78077248 799369 0.010238181038348074 0.1658905919274426 chr19 59128983 626925 0.010602668407132929 0.16012433170083185 chr20 63025520 641034 0.010171022785690622 0.10450504366534784 chr21 48129895 381946 0.007935733082318172 0.09483011559217605 chr22 51304566 350158 0.006825084535360849 0.08536727164780844 chrMT 16571 7279 0.4392613602075916 0.7222264471187723 chrX 155270560 1673480 0.010777831934141282 0.1109966250103777 chrY 59373566 98188 0.0016537325718317137 0.06649506062281613