mode	bam
runtime_info	qc3C_version qc3C 0.5rc10 run_timestamp 2021-02-10 05:02:31.713083
input_args	bam_file DRR177173.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	851737
n_analysed_reads	844744
n_accepted_reads	492494
n_skipped_reads	0
n_unmapped	6993
n_low_mapq	101309
n_ref_len	0
n_secondary	0
n_supplementary	232131
n_duplicate	0
n_weak_mapping	52130
n_ref_term	0
n_analysed_pairs	200000
n_accepted_pairs	200000
n_trans_pairs	35169
n_cis_pairs	164831
n_fully_aligned	150062
n_align_term	249938
n_no_site_end	180899
n_short_inserts	12094
classification	informative fr 39088 rf 36839 ffrr 76090 uninformative religation 1447 dangling_ends 9727 self_circle 1611 ffrr 1476
obs_insert_mean	236.6373576823357
obs_insert_median	234.0
mean_readlen	151.0
unobs_fraction	0.0
digest_stats	cs_start 34 cs_term 219101 cs_full 1405 read_thru 198383 is_split 159824 vestigial AAGCT
separation_bins	bins 1000 5000 10000 counts 152737 144401 137179 vs_all_cis 92.66278794644211 87.60548683196728 83.2240294604777 vs_accepted 76.3685 72.2005 68.5895
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 198383
remnant_frequency	HindIII AAGCT 219101