| mode | bam |
|---|
| runtime_info | | qc3C_version | qc3C 0.5rc10 |
|---|
| run_timestamp | 2021-02-10 05:01:02.317488 |
|---|
|
|---|
| input_args | | bam_file | DRR177165.bam |
|---|
| fasta_file | Homo_sapiens.GRCh37.dna.primary_assembly.fa.gz |
|---|
| enzymes | |
|---|
| seed | 12345 |
|---|
| sample_rate | None |
|---|
| min_mapq | 60 |
|---|
| max_obs | 200000 |
|---|
|
|---|
| n_parsed_reads | 785036 |
|---|
| n_analysed_reads | 777751 |
|---|
| n_accepted_reads | 487172 |
|---|
| n_skipped_reads | 0 |
|---|
| n_unmapped | 7285 |
|---|
| n_low_mapq | 92494 |
|---|
| n_ref_len | 0 |
|---|
| n_secondary | 0 |
|---|
| n_supplementary | 174960 |
|---|
| n_duplicate | 0 |
|---|
| n_weak_mapping | 48558 |
|---|
| n_ref_term | 0 |
|---|
| n_analysed_pairs | 200000 |
|---|
| n_accepted_pairs | 200000 |
|---|
| n_trans_pairs | 35999 |
|---|
| n_cis_pairs | 164001 |
|---|
| n_fully_aligned | 206206 |
|---|
| n_align_term | 193794 |
|---|
| n_no_site_end | 219239 |
|---|
| n_short_inserts | 11782 |
|---|
| classification | | informative | |
|---|
| uninformative | | religation | 1830 |
|---|
| dangling_ends | 9290 |
|---|
| self_circle | 1422 |
|---|
| ffrr | 1178 |
|---|
|
|---|
|
|---|
| obs_insert_mean | 248.10333183250788 |
|---|
| obs_insert_median | 244.0 |
|---|
| mean_readlen | 127.0 |
|---|
| unobs_fraction | 0.040983606557377095 |
|---|
| digest_stats | | cs_start | 41 |
|---|
| cs_term | 180761 |
|---|
| cs_full | 1964 |
|---|
| read_thru | 165780 |
|---|
| is_split | 122593 |
|---|
| vestigial | |
|---|
|
|---|
| separation_bins | | bins | |
|---|
| counts | |
|---|
| vs_all_cis | - 92.81589746403985
- 87.75556246608252
- 83.39644270461766
|
|---|
| vs_accepted | - 76.1095
- 71.96000000000001
- 68.3855
|
|---|
|
|---|
| digestion | | cutsites | | AAGCTT | | name | HindIII |
|---|
| site | AAGCTT |
|---|
| site_len | 6 |
|---|
|
|---|
|
|---|
| junctions | | AAGCTAGCTT | | enz5p | HindIII |
|---|
| enz3p | HindIII |
|---|
| junction | AAGCTAGCTT |
|---|
| vestigial | AAGCT |
|---|
| junc_len | 10 |
|---|
| vest_len | 5 |
|---|
| pattern | AAGCTAGCTT |
|---|
| cross | True |
|---|
|
|---|
|
|---|
|
|---|
| junction_frequency | | HindIII/HindIII AAGCTAGCTT | 165780 |
|---|
|
|---|
| remnant_frequency | |
|---|