Input data and parameters
Input
| Analysis date: | Thu May 28 10:49:19 CST 2026 |
| BAM file: | /home/kyhan/test/rna-seq/yeast-standard-out/03_results/alignment/03_results/bam/WT_10.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: | 482,593 |
| Total number of alignments: | 594,583 |
| Number of secondary alignments: | 111,990 |
| Number of non-unique alignments: | 195,767 |
| Aligned to genes: | 325,994 |
| Ambiguous alignments: | 69,122 |
| No feature assigned: | 3,700 |
| Not aligned: | 17,407 |
| Strand specificity estimation (fwd/rev): | 0.51 / 0.49 |
Reads genomic origin
| Exonic: | 325,994 / 98.88% |
| Intronic: | 486 / 0.15% |
| Intergenic: | 3,214 / 0.97% |
| Intronic/intergenic overlapping exon: | 12,809 / 3.89% |
Transcript coverage profile
| 5' bias: | 0.27 |
| 3' bias: | 0.17 |
| 5'-3' bias: | 1.6 |
Junction analysis
| Reads at junctions: | 3,761 |
| ACCT | 5.34% |
| TGCT | 4.25% |
| AAAT | 3.62% |
| AGGT | 3.27% |
| CTCT | 3.14% |
| TGGC | 3.14% |
| TCAC | 2.71% |
| ACGT | 2.61% |
| AAGC | 2.42% |
| AGCC | 2.39% |
| AGCA | 2.29% |
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