mode	bam
runtime_info	qc3C_version qc3C 0.5rc10 run_timestamp 2021-02-10 05:00:08.509041
input_args	bam_file DRR177161.bam fasta_file GCF_000230535.1_PelSin_1.0_genomic.fna.gz enzymes Sau3AI MluCI seed 12345 sample_rate None min_mapq 60 max_obs 200000
n_parsed_reads	603551
n_analysed_reads	603551
n_accepted_reads	476113
n_skipped_reads	0
n_unmapped	0
n_low_mapq	114035
n_ref_len	1160
n_secondary	0
n_supplementary	0
n_duplicate	0
n_weak_mapping	12570
n_ref_term	78
n_analysed_pairs	200000
n_accepted_pairs	200000
n_trans_pairs	64074
n_cis_pairs	135926
n_fully_aligned	356490
n_align_term	43510
n_no_site_end	371703
n_short_inserts	112261
classification	informative fr 88674 rf 5792 ffrr 12175 uninformative religation 21988 dangling_ends 27969 self_circle 1265 ffrr 51
obs_insert_mean	511.307051303137
obs_insert_median	509.0
mean_readlen	127.0
unobs_fraction	0.5324165029469548
digest_stats	cs_start 3983 cs_term 28297 cs_full 3254 read_thru 20435 is_split 12903 vestigial AATT GATC
separation_bins	bins 1000 5000 10000 counts 23665 16059 13324 vs_all_cis 17.410208495799186 11.814516722334211 9.80239247826023 vs_accepted 11.8325 8.0295 6.662
digestion	cutsites GATC name Sau3AI site GATC site_len 4 AATT name MluCI site AATT site_len 4 junctions GATCGATC enz5p Sau3AI enz3p Sau3AI junction GATCGATC vestigial GATC junc_len 8 vest_len 4 pattern GATCGATC cross True GATCAATT enz5p Sau3AI enz3p MluCI junction GATCAATT vestigial GATC junc_len 8 vest_len 4 pattern GATCAATT cross False AATTGATC enz5p MluCI enz3p Sau3AI junction AATTGATC vestigial AATT junc_len 8 vest_len 4 pattern AATTGATC cross False AATTAATT enz5p MluCI enz3p MluCI junction AATTAATT vestigial AATT junc_len 8 vest_len 4 pattern AATTAATT cross True
junction_frequency	Sau3AI/Sau3AI GATCGATC 20422 Sau3AI/MluCI GATCAATT 6 MluCI/Sau3AI AATTGATC 7 MluCI/MluCI AATTAATT 0
remnant_frequency	MluCI AATT 2348 Sau3AI GATC 25949