RNA-Seq QC report ----------------------------------- >>>>>>> Input bam file = SRX7354379.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) = 45,605,018 / 45,578,202 read pairs aligned = 45,557,191 total alignments = 98,959,164 secondary alignments = 7,775,944 non-unique alignments = 12,968,935 aligned to genes = 75,062,036 ambiguous alignments = 307,213 no feature assigned = 10,022,293 not aligned = 2,084,512 >>>>>>> Reads genomic origin exonic = 75,062,036 (88.22%) intronic = 6,511,748 (7.65%) intergenic = 3,510,545 (4.13%) overlapping exon = 3,710,751 (4.36%) >>>>>>> Transcript coverage profile 5' bias = 0.42 3' bias = 0.23 5'-3' bias = 1.89 >>>>>>> Junction analysis reads at junctions = 27,115,102 ACCT : 5.34% AGGT : 4.51% TCCT : 3.95% ATCT : 3.88% GCCT : 3.53% AGGA : 3.19% CCCT : 2.92% AGCT : 2.56% AGGC : 2.38% TTCT : 2.12% AGAT : 1.84%