mode	bam
runtime_info	qc3C_version qc3C 0.5rc10 run_timestamp 2021-02-10 05:00:23.775972
input_args	bam_file DRR177162.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	637754
n_analysed_reads	637754
n_accepted_reads	491606
n_skipped_reads	0
n_unmapped	0
n_low_mapq	129443
n_ref_len	1275
n_secondary	0
n_supplementary	0
n_duplicate	0
n_weak_mapping	15730
n_ref_term	100
n_analysed_pairs	200000
n_accepted_pairs	200000
n_trans_pairs	76623
n_cis_pairs	123377
n_fully_aligned	354913
n_align_term	45087
n_no_site_end	376236
n_short_inserts	102077
classification	informative fr 83257 rf 5263 ffrr 10925 uninformative religation 20657 dangling_ends 23176 self_circle 689 ffrr 67
obs_insert_mean	549.9077226366985
obs_insert_median	549.0
mean_readlen	127.0
unobs_fraction	0.5664845173041895
digest_stats	cs_start 3888 cs_term 23764 cs_full 3017 read_thru 14447 is_split 9165 vestigial GATC AATT
separation_bins	bins 1000 5000 10000 counts 21300 15212 13038 vs_all_cis 17.264157825202428 12.329688677792456 10.567609846243627 vs_accepted 10.65 7.606 6.519
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 14415 Sau3AI/MluCI GATCAATT 19 MluCI/Sau3AI AATTGATC 13 MluCI/MluCI AATTAATT 0
remnant_frequency	Sau3AI GATC 21414 MluCI AATT 2350