mode	bam
runtime_info	qc3C_version qc3C 0.5rc10 run_timestamp 2021-02-10 05:02:05.046248
input_args	bam_file DRR177171.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	617844
n_analysed_reads	617844
n_accepted_reads	481062
n_skipped_reads	0
n_unmapped	0
n_low_mapq	118971
n_ref_len	1346
n_secondary	0
n_supplementary	0
n_duplicate	0
n_weak_mapping	16767
n_ref_term	127
n_analysed_pairs	200000
n_accepted_pairs	200000
n_trans_pairs	73334
n_cis_pairs	126666
n_fully_aligned	328294
n_align_term	71706
n_no_site_end	367309
n_short_inserts	107007
classification	informative fr 69033 rf 5168 ffrr 10694 uninformative religation 24835 dangling_ends 40702 self_circle 988 ffrr 81
obs_insert_mean	485.25729088039526
obs_insert_median	486.0
mean_readlen	151.0
unobs_fraction	0.411522633744856
digest_stats	cs_start 3908 cs_term 32691 cs_full 2820 read_thru 20784 is_split 14756 vestigial AATT GATC
separation_bins	bins 1000 5000 10000 counts 19659 14415 12409 vs_all_cis 15.520344843920231 11.380323054331864 9.796630508581625 vs_accepted 9.8295 7.2075 6.2045
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 20738 Sau3AI/MluCI GATCAATT 23 MluCI/Sau3AI AATTGATC 23 MluCI/MluCI AATTAATT 0
remnant_frequency	MluCI AATT 2261 Sau3AI GATC 30430