BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714045.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 492 number of mapped reads = 212 (43.09%) number of supplementary alignments = 4 (0.81%) number of secondary alignments = 0 number of mapped bases = 25,269 bp number of sequenced bases = 25,195 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 133 duplication rate = 22.89% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 4.2725 >>>>>>> ACTG content number of A's = 2,173 bp (8.62%) number of C's = 1,721 bp (6.83%) number of T's = 1,918 bp (7.61%) number of G's = 19,383 bp (76.93%) number of N's = 0 bp (0%) GC percentage = 83.76% >>>>>>> Mismatches and indels general error rate = 0.0273 number of mismatches = 583 number of insertions = 18 mapped reads with insertion percentage = 7.08% number of deletions = 21 mapped reads with deletion percentage = 9.91% homopolymer indels = 43.59% >>>>>>> Coverage mean coverageData = 0X std coverageData = 0.0218X There is a 0% of reference with a coverageData >= 1X There is a 0% 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 356 1.4282812960373729E-6 0.0014499309097139605 chr2 243199373 18143 7.460134364737857E-5 0.07757674523891399 chr3 198022430 386 1.9492741302083808E-6 0.0017522429999309987 chr4 191154276 35 1.830981798178556E-7 4.2789969185886564E-4 chr5 180915260 373 2.0617387388990846E-6 0.0018793712004024946 chr6 171115067 579 3.383688006854475E-6 0.002485380982485227 chr7 159138663 337 2.117650064711176E-6 0.0019465723611998616 chr8 146364022 293 2.001858079576414E-6 0.0019261163272006482 chr9 141213431 632 4.475494969030247E-6 0.00282879001317273 chr10 135534747 745 5.496745421305136E-6 0.003517553399430929 chr11 135006516 315 2.333220716546748E-6 0.0020780530898333715 chr12 133851895 573 4.280850861319521E-6 0.0030177909640162733 chr13 115169878 56 4.86238250595351E-7 6.973076897379769E-4 chr14 107349540 0 0.0 0.0 chr15 102531392 307 2.9942049357917622E-6 0.001889346359884205 chr16 90354753 0 0.0 0.0 chr17 81195210 31 3.817959212125937E-7 6.178962497413852E-4 chr18 78077248 120 1.5369394167171467E-6 0.001239732654459975 chr19 59128983 0 0.0 0.0 chr20 63025520 140 2.221322410350601E-6 0.0014904084930237582 chr21 48129895 272 5.651373226557008E-6 0.003337139283105151 chr22 51304566 210 4.093202932464139E-6 0.002581870816283293 chrMT 16571 150 0.009051958240299317 0.09439685593291576 chrX 155270560 1216 7.831491043762579E-6 0.0031869114394671143 chrY 59373566 0 0.0 0.0