BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716820.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 = 527,192 number of mapped reads = 457,729 (86.82%) number of supplementary alignments = 2,435 (0.46%) number of secondary alignments = 0 number of mapped bases = 26,631,435 bp number of sequenced bases = 26,623,907 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,868 duplication rate = 1.68% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7456 >>>>>>> ACTG content number of A's = 6,632,177 bp (24.91%) number of C's = 5,338,234 bp (20.05%) number of T's = 8,163,463 bp (30.66%) number of G's = 6,489,891 bp (24.38%) number of N's = 142 bp (0%) GC percentage = 44.43% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 132,911 number of insertions = 1,541 mapped reads with insertion percentage = 0.33% number of deletions = 4,646 mapped reads with deletion percentage = 1.01% homopolymer indels = 42.4% >>>>>>> Coverage mean coverageData = 0.0086X std coverageData = 0.1123X There is a 0.81% 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 3215377 0.012900176485417863 0.1562334686931336 chr2 243199373 2682252 0.011029025144731768 0.1522947582596001 chr3 198022430 1667864 0.008422601419445262 0.09501027422928704 chr4 191154276 1135364 0.005939516623734852 0.08710046879330519 chr5 180915260 1926936 0.010651041819247309 0.10748650990875339 chr6 171115067 990054 0.005785896106974613 0.08237859191435043 chr7 159138663 1836763 0.011541902925249535 0.15357299552541362 chr8 146364022 1195264 0.008166378483367997 0.10703106070137862 chr9 141213431 746895 0.005289121542553555 0.0845356341889673 chr10 135534747 1229050 0.009068154308798761 0.11170618321075695 chr11 135006516 1177366 0.00872080870526279 0.1092683703397386 chr12 133851895 795387 0.005942291664977922 0.0802334069287466 chr13 115169878 767788 0.0066665695347875595 0.0847422597743394 chr14 107349540 575479 0.005360796143141368 0.07652838211180839 chr15 102531392 1186271 0.01156983219344179 0.1119063764597754 chr16 90354753 809042 0.008954061332003199 0.10014980405331862 chr17 81195210 1046846 0.012892952675410286 0.12089667985942132 chr18 78077248 842492 0.010790493025573852 0.15357822951942804 chr19 59128983 344638 0.005828579869198832 0.11081248836384489 chr20 63025520 716558 0.011369331026542898 0.11138788401518564 chr21 48129895 352569 0.007325363996742565 0.09134645590713004 chr22 51304566 304071 0.0059267824232252546 0.08009976811602694 chrMT 16571 622 0.037535453503107837 0.20853969071186582 chrX 155270560 1017732 0.006554571581373829 0.0868390822527847 chrY 59373566 68755 0.0011580069150638518 0.046900864883755104