| mode | kmer |
|---|
| runtime_info | | qc3C_version | qc3C 0.5rc10 |
|---|
| run_timestamp | 2021-02-10 05:20:46.144107 |
|---|
|
|---|
| input_args | | kmer_db | kmer_out/DRR177163/DRR177163.jf |
|---|
| kmer_size | 24 |
|---|
| read_list | - DRR177163_1.fastq.gz
- DRR177163_2.fastq.gz
|
|---|
| enzymes | |
|---|
| seed | 12345 |
|---|
| sample_rate | None |
|---|
| max_coverage | 2840 |
|---|
| mean_coverage | 1.324228200776285 |
|---|
| min_coverage | 1 |
|---|
| mean_insert | 295 |
|---|
| max_freq_quantile | 0.9 |
|---|
| max_obs | 200000 |
|---|
| num_sample | 100 |
|---|
| frac_sample | 1 |
|---|
|
|---|
| n_parsed_reads | 209512 |
|---|
| n_analysed_reads | 209512 |
|---|
| n_too_short | 0 |
|---|
| n_no_flank | 0 |
|---|
| n_ambiguous | 33 |
|---|
| n_high_cov | 1338 |
|---|
| n_low_cov | 0 |
|---|
| n_zero_cov | 8141 |
|---|
| n_accepted_reads | 200000 |
|---|
| n_without_junc | 34961 |
|---|
| n_with_junc | 69542 |
|---|
| mean_readlen | 127.0 |
|---|
| cs_start | 31233 |
|---|
| unobs_fraction | 0.2278439443878184 |
|---|
| raw_fraction | - 0.4107005141562543
- 0.4192440415337382
|
|---|
| adj_fraction | - 0.5567575861104952
- 0.5662605240068749
|
|---|
| digestion | | cutsites | | GATC | | name | DpnII |
|---|
| site | GATC |
|---|
| site_len | 4 |
|---|
|
|---|
| GANTC | | name | HinfI |
|---|
| site | GANTC |
|---|
| site_len | 5 |
|---|
|
|---|
|
|---|
| junctions | | GATCGATC | | enz5p | DpnII |
|---|
| enz3p | DpnII |
|---|
| junction | GATCGATC |
|---|
| vestigial | GATC |
|---|
| junc_len | 8 |
|---|
| vest_len | 4 |
|---|
| pattern | GATCGATC |
|---|
| cross | True |
|---|
|
|---|
| GATCANTC | | enz5p | DpnII |
|---|
| enz3p | HinfI |
|---|
| junction | GATCANTC |
|---|
| vestigial | GATC |
|---|
| junc_len | 8 |
|---|
| vest_len | 4 |
|---|
| pattern | GATCA[ACGT]TC |
|---|
| cross | False |
|---|
|
|---|
| GANTGATC | | enz5p | HinfI |
|---|
| enz3p | DpnII |
|---|
| junction | GANTGATC |
|---|
| vestigial | GANT |
|---|
| junc_len | 8 |
|---|
| vest_len | 4 |
|---|
| pattern | GA[ACGT]TGATC |
|---|
| cross | False |
|---|
|
|---|
| GANTANTC | | enz5p | HinfI |
|---|
| enz3p | HinfI |
|---|
| junction | GANTANTC |
|---|
| vestigial | GANT |
|---|
| junc_len | 8 |
|---|
| vest_len | 4 |
|---|
| pattern | GA[ACGT]TA[ACGT]TC |
|---|
| cross | True |
|---|
|
|---|
|
|---|
|
|---|
| junction_frequency | | DpnII/DpnII GATCGATC | 37114 |
|---|
| DpnII/HinfI GATCAATC | 6385 |
|---|
| DpnII/HinfI GATCACTC | 5704 |
|---|
| DpnII/HinfI GATCAGTC | 4500 |
|---|
| DpnII/HinfI GATCATTC | 710 |
|---|
| HinfI/DpnII GAATGATC | 744 |
|---|
| HinfI/DpnII GACTGATC | 4521 |
|---|
| HinfI/DpnII GAGTGATC | 5421 |
|---|
| HinfI/DpnII GATTGATC | 5989 |
|---|
| HinfI/HinfI GAATAATC | 452 |
|---|
| HinfI/HinfI GACTAATC | 971 |
|---|
| HinfI/HinfI GAGTAATC | 1170 |
|---|
| HinfI/HinfI GATTAATC | 1280 |
|---|
| HinfI/HinfI GAATACTC | 285 |
|---|
| HinfI/HinfI GACTACTC | 1019 |
|---|
| HinfI/HinfI GAGTACTC | 999 |
|---|
| HinfI/HinfI GATTACTC | 1139 |
|---|
| HinfI/HinfI GAATAGTC | 303 |
|---|
| HinfI/HinfI GACTAGTC | 798 |
|---|
| HinfI/HinfI GAGTAGTC | 1023 |
|---|
| HinfI/HinfI GATTAGTC | 918 |
|---|
| HinfI/HinfI GAATATTC | 329 |
|---|
| HinfI/HinfI GACTATTC | 359 |
|---|
| HinfI/HinfI GAGTATTC | 260 |
|---|
| HinfI/HinfI GATTATTC | 438 |
|---|
|
|---|