BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524735.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 = 676,348 number of mapped reads = 583,105 (86.21%) number of supplementary alignments = 6,874 (1.02%) number of secondary alignments = 0 number of mapped bases = 33,209,342 bp number of sequenced bases = 33,200,641 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,199 duplication rate = 1.2% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 39.8866 >>>>>>> ACTG content number of A's = 8,690,423 bp (26.18%) number of C's = 6,052,493 bp (18.23%) number of T's = 10,192,150 bp (30.7%) number of G's = 8,261,260 bp (24.88%) number of N's = 4,315 bp (0.01%) GC percentage = 43.11% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 165,285 number of insertions = 2,657 mapped reads with insertion percentage = 0.45% number of deletions = 5,390 mapped reads with deletion percentage = 0.92% homopolymer indels = 39.44% >>>>>>> Coverage mean coverageData = 0.0107X std coverageData = 0.1527X There is a 1.02% of reference with a coverageData >= 1X There is a 0.03% 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 2636940 0.010579472137002218 0.2709329818357239 chr2 243199373 2808848 0.011549569249917433 0.17996986313068677 chr3 198022430 2179805 0.011007869159064456 0.11023674003976122 chr4 191154276 2122046 0.01110122171685032 0.11262407357176166 chr5 180915260 1985098 0.01097252934882331 0.10873282315361753 chr6 171115067 1874814 0.010956451894443638 0.1116824010655057 chr7 159138663 1876053 0.011788794530716901 0.20390697394972424 chr8 146364022 1671941 0.01142316928131423 0.1414770460832746 chr9 141213431 1428374 0.010115001029894953 0.13852409716995842 chr10 135534747 1629913 0.012025794389094924 0.1782734826630471 chr11 135006516 1497560 0.01109250163895793 0.13049685866831687 chr12 133851895 1516031 0.011326182569174684 0.11111711302437012 chr13 115169878 1009137 0.008762160883768584 0.09662186812187593 chr14 107349540 988269 0.009206085093611021 0.10238549347956656 chr15 102531392 927772 0.009048662871952426 0.09937483362021143 chr16 90354753 977756 0.01082130123248746 0.118904580258953 chr17 81195210 910933 0.011219048512837148 0.11349244449003389 chr18 78077248 866700 0.011100544937239592 0.21917710129131815 chr19 59128983 747097 0.012635038894546858 0.21234220345482654 chr20 63025520 683566 0.010845860533955134 0.10894974735336646 chr21 48129895 428849 0.008910241753072597 0.10273082143849362 chr22 51304566 384811 0.007500521493545039 0.08931611046324657 chrMT 16571 16041 0.9680164142176091 1.1566148078738219 chrX 155270560 1925735 0.012402447701611948 0.12749118970657783 chrY 59373566 115253 0.00194115003973317 0.05855041064275851