BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525240.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 = 1,082,114 number of mapped reads = 993,187 (91.78%) number of supplementary alignments = 3,560 (0.33%) number of secondary alignments = 0 number of mapped bases = 57,517,281 bp number of sequenced bases = 57,498,339 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 28,159 duplication rate = 2.04% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2141 >>>>>>> ACTG content number of A's = 13,867,237 bp (24.12%) number of C's = 10,365,119 bp (18.03%) number of T's = 18,912,410 bp (32.89%) number of G's = 14,352,350 bp (24.96%) number of N's = 1,223 bp (0%) GC percentage = 42.99% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 288,833 number of insertions = 3,937 mapped reads with insertion percentage = 0.39% number of deletions = 12,000 mapped reads with deletion percentage = 1.2% homopolymer indels = 43.38% >>>>>>> Coverage mean coverageData = 0.0186X std coverageData = 0.2081X There is a 1.72% of reference with a coverageData >= 1X There is a 0.09% 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 6068168 0.024345648470821664 0.38169355468385313 chr2 243199373 4786911 0.019683072949369815 0.2468458205624621 chr3 198022430 4250699 0.021465745067364338 0.15665362977584307 chr4 191154276 2687151 0.014057498771306586 0.13091502834424806 chr5 180915260 2580125 0.014261511162739948 0.12616950065375396 chr6 171115067 3627651 0.021200067671422528 0.1667980957874193 chr7 159138663 4227825 0.02656692547429533 0.3427744026584285 chr8 146364022 3317293 0.022664675066117 0.21749670999185783 chr9 141213431 1905909 0.013496655286280808 0.14692957480981025 chr10 135534747 3065783 0.02261990425230218 0.21636141599581366 chr11 135006516 2586669 0.01915958634174368 0.16837701947619527 chr12 133851895 2569636 0.01919760642910584 0.14815167914769856 chr13 115169878 1800226 0.015631048944933328 0.13418175968652457 chr14 107349540 2110641 0.01966138839532987 0.15006158604812636 chr15 102531392 1609180 0.015694510418818853 0.13337472923799348 chr16 90354753 1519078 0.01681237510549113 0.14815554028296432 chr17 81195210 991960 0.01221697683890466 0.12018715469205635 chr18 78077248 1239134 0.015870615726619873 0.2502270891376344 chr19 59128983 886097 0.014985831905818505 0.24299790172390062 chr20 63025520 1031984 0.016374065616594675 0.13778574202795044 chr21 48129895 735038 0.01527196350625739 0.13487305147244055 chr22 51304566 439982 0.00857588386967351 0.09686673074887721 chrMT 16571 60331 3.6407579506366545 2.686714511924685 chrX 155270560 3247406 0.020914499181300047 0.1610143793636504 chrY 59373566 172404 0.002903716445126439 0.09515487694555533