Input data and parameters
Input
| Analysis date: | Thu May 28 10:49:31 CST 2026 |
| BAM file: | /home/kyhan/test/rna-seq/yeast-standard-out/03_results/alignment/03_results/bam/WT_12.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: | 482,648 |
| Total number of alignments: | 563,906 |
| Number of secondary alignments: | 81,258 |
| Number of non-unique alignments: | 138,605 |
| Aligned to genes: | 347,380 |
| Ambiguous alignments: | 73,925 |
| No feature assigned: | 3,996 |
| Not aligned: | 17,352 |
| Strand specificity estimation (fwd/rev): | 0.51 / 0.49 |
Reads genomic origin
| Exonic: | 347,380 / 98.86% |
| Intronic: | 608 / 0.17% |
| Intergenic: | 3,388 / 0.96% |
| Intronic/intergenic overlapping exon: | 13,618 / 3.88% |
Transcript coverage profile
| 5' bias: | 0.24 |
| 3' bias: | 0.14 |
| 5'-3' bias: | 1.84 |
Junction analysis
| Reads at junctions: | 4,590 |
| ACCT | 4.12% |
| TGCT | 3.55% |
| AAAT | 3.49% |
| CTCT | 2.88% |
| TGGC | 2.85% |
| AAGC | 2.81% |
| AGGT | 2.72% |
| ACCA | 2.61% |
| AGCC | 2.55% |
| CTGC | 2.53% |
| TCAC | 2.44% |
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