mode	bam
runtime_info	qc3C_version qc3C 0.5rc10 run_timestamp 2021-02-10 05:01:16.731686
input_args	bam_file DRR177166.bam fasta_file Homo_sapiens.GRCh37.dna.primary_assembly.fa.gz enzymes HindIII seed 12345 sample_rate None min_mapq 60 max_obs 200000
n_parsed_reads	764437
n_analysed_reads	740835
n_accepted_reads	483626
n_skipped_reads	0
n_unmapped	23602
n_low_mapq	87314
n_ref_len	0
n_secondary	0
n_supplementary	149461
n_duplicate	0
n_weak_mapping	41788
n_ref_term	1
n_analysed_pairs	200000
n_accepted_pairs	200000
n_trans_pairs	25643
n_cis_pairs	174357
n_fully_aligned	233969
n_align_term	166031
n_no_site_end	243520
n_short_inserts	38293
classification	informative fr 38603 rf 31713 ffrr 68802 uninformative religation 5338 dangling_ends 30482 self_circle 2666 ffrr 2091
obs_insert_mean	247.56269554753308
obs_insert_median	244.0
mean_readlen	127.0
unobs_fraction	0.040983606557377095
digest_stats	cs_start 83 cs_term 156480 cs_full 1788 read_thru 146929 is_split 108053 vestigial AAGCT
separation_bins	bins 1000 5000 10000 counts 136064 120513 110481 vs_all_cis 78.03758954329336 69.11853266573755 63.36482045458456 vs_accepted 68.03200000000001 60.2565 55.240500000000004
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 146929
remnant_frequency	HindIII AAGCT 156480