BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714185.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 = 56,904 number of mapped reads = 9,866 (17.34%) number of supplementary alignments = 166 (0.29%) number of secondary alignments = 0 number of mapped bases = 885,898 bp number of sequenced bases = 883,116 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,988 duplication rate = 40.13% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 12.3066 >>>>>>> ACTG content number of A's = 52,576 bp (5.95%) number of C's = 30,430 bp (3.45%) number of T's = 39,872 bp (4.51%) number of G's = 760,223 bp (86.08%) number of N's = 15 bp (0%) GC percentage = 89.53% >>>>>>> Mismatches and indels general error rate = 0.0303 number of mismatches = 21,440 number of insertions = 848 mapped reads with insertion percentage = 6.13% number of deletions = 522 mapped reads with deletion percentage = 5.05% homopolymer indels = 55.55% >>>>>>> Coverage mean coverageData = 0.0003X std coverageData = 0.9502X 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 33356 1.3382514300736687E-4 0.27914626362207967 chr2 243199373 741033 0.0030470185463841635 3.3674098972154094 chr3 198022430 1339 6.76186025997156E-6 0.003151693584176746 chr4 191154276 1555 8.134790560479012E-6 0.0035953672971230054 chr5 180915260 1413 7.810286429127095E-6 0.0033653652757338996 chr6 171115067 2966 1.7333365506615498E-5 0.007349159247084659 chr7 159138663 3802 2.389111437991659E-5 0.018690035694782704 chr8 146364022 2076 1.4183813560411725E-5 0.006113854497098571 chr9 141213431 1886 1.3355670113276973E-5 0.00491402819753614 chr10 135534747 24427 1.8022684618284639E-4 0.36134606535910085 chr11 135006516 1048 7.762588288701561E-6 0.0042616929466813116 chr12 133851895 2950 2.2039284539079554E-5 0.0106085727281955 chr13 115169878 710 6.164806391476772E-6 0.0031392625730698896 chr14 107349540 1897 1.767124479527346E-5 0.017919011035564283 chr15 102531392 2743 2.6752782211325094E-5 0.01714719612284045 chr16 90354753 1286 1.4232787510359306E-5 0.004830120996439803 chr17 81195210 2236 2.753857031714063E-5 0.011537354268416861 chr18 78077248 682 8.73493901834245E-6 0.0035572546882147666 chr19 59128983 454 7.678129691491565E-6 0.003174838624071981 chr20 63025520 2035 3.228850789331052E-5 0.010315052202130087 chr21 48129895 636 1.3214240338567122E-5 0.00491776152902153 chr22 51304566 387 7.543188261255343E-6 0.004148600590463703 chrMT 16571 4455 0.26884315973688977 1.1911198366542821 chrX 155270560 49316 3.176133324952264E-4 0.04024217455960248 chrY 59373566 1210 2.0379439564064586E-5 0.007110612582866699