RNA-Seq QC report ----------------------------------- >>>>>>> Input bam file = SRX7354226.markdup.sorted.bam gff file = gencode.v44.annotation_genes_collapsed_only_patched_ERCC92.gtf counting algorithm = uniquely-mapped-reads protocol = strand-specific-reverse 5'-3' bias region size = 100 5'-3' bias number of top transcripts = 1000 >>>>>>> Reads alignment reads aligned (left/right) = 37,885,526 / 37,868,493 read pairs aligned = 37,863,836 total alignments = 80,774,520 secondary alignments = 5,020,501 non-unique alignments = 8,222,554 aligned to genes = 65,483,693 ambiguous alignments = 172,093 no feature assigned = 6,522,625 not aligned = 2,432,783 >>>>>>> Reads genomic origin exonic = 65,483,693 (90.94%) intronic = 4,039,644 (5.61%) intergenic = 2,482,981 (3.45%) overlapping exon = 2,229,404 (3.1%) >>>>>>> Transcript coverage profile 5' bias = 0.53 3' bias = 0.21 5'-3' bias = 1.98 >>>>>>> Junction analysis reads at junctions = 21,681,461 ACCT : 5.09% AGGT : 4.94% ATCT : 3.95% AGGA : 3.78% TCCT : 3.78% AGCT : 3.02% GCCT : 2.7% AGGC : 2.36% AGAT : 2.21% CCCT : 2.18% TTCT : 2.11%