Input data and parameters
Input
| Analysis date: | Thu May 28 10:49:24 CST 2026 |
| BAM file: | /home/kyhan/test/rna-seq/yeast-standard-out/03_results/alignment/03_results/bam/WT_11.sorted.bam |
| Counting algorithm: | uniquely-mapped-reads |
| GTF file: | /home/kyhan/test/rna-seq/yeast-standard-out/03_results/alignment_qc/00_inputs/genes.gtf |
| Number of bases for 5'-3' bias computation: | 100 |
| Number of transcripts for 5'-3' bias computation: | 1,000 |
| Paired-end sequencing: | no |
| Protocol: | non-strand-specific |
| Sorting performed: | no |
Summary
Reads alignment
| Number of mapped reads: | 484,869 |
| Total number of alignments: | 583,794 |
| Number of secondary alignments: | 98,925 |
| Number of non-unique alignments: | 171,698 |
| Aligned to genes: | 334,766 |
| Ambiguous alignments: | 74,526 |
| No feature assigned: | 2,804 |
| Not aligned: | 15,131 |
| Strand specificity estimation (fwd/rev): | 0.51 / 0.49 |
Reads genomic origin
| Exonic: | 334,766 / 99.17% |
| Intronic: | 420 / 0.12% |
| Intergenic: | 2,384 / 0.71% |
| Intronic/intergenic overlapping exon: | 12,146 / 3.6% |
Transcript coverage profile
| 5' bias: | 0.19 |
| 3' bias: | 0.05 |
| 5'-3' bias: | 6.38 |
Junction analysis
| Reads at junctions: | 3,794 |
| TCAC | 5.27% |
| TGCT | 4.53% |
| ACCT | 4.43% |
| CTCT | 3.98% |
| ACGT | 3.69% |
| AGGT | 3.53% |
| AAGC | 2.74% |
| AGCC | 2.71% |
| TAGT | 2.56% |
| CGTT | 2.53% |
| AAAT | 2.53% |
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