mode	bam
runtime_info	qc3C_version qc3C 0.5rc10 run_timestamp 2021-02-10 04:59:23.261137
input_args	bam_file DRR177157.bam fasta_file GCF_000230535.1_PelSin_1.0_genomic.fna.gz enzymes HindIII seed 12345 sample_rate None min_mapq 60 max_obs 200000
n_parsed_reads	687468
n_analysed_reads	687468
n_accepted_reads	523737
n_skipped_reads	0
n_unmapped	0
n_low_mapq	104804
n_ref_len	905
n_secondary	0
n_supplementary	0
n_duplicate	0
n_weak_mapping	58341
n_ref_term	47
n_analysed_pairs	200000
n_accepted_pairs	200000
n_trans_pairs	112227
n_cis_pairs	87773
n_fully_aligned	190289
n_align_term	209711
n_no_site_end	230199
n_short_inserts	16899
classification	informative fr 18759 rf 16510 ffrr 35080 uninformative religation 1680 dangling_ends 14068 self_circle 1844 ffrr 1512
obs_insert_mean	217.18866739915242
obs_insert_median	214.0
mean_readlen	127.0
unobs_fraction	0.0
digest_stats	cs_start 64 cs_term 169801 cs_full 1777 read_thru 143363 is_split 106651 vestigial AAGCT
separation_bins	bins 1000 5000 10000 counts 70874 62740 56677 vs_all_cis 80.746926731455 71.47984004192634 64.57224886924226 vs_accepted 35.437000000000005 31.369999999999997 28.3385
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 143363
remnant_frequency	HindIII AAGCT 169801