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All_hpromoterRegions_BG_model_mkv_2.oligos
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; oligo-analysis -v 1 -quick -1str -i results/sequences/All_hpromoterRegions.fasta -l 2 -noov -o results/BG_models/All_hpromoterRegions_BG_model_mkv_2.oligos
; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42.
; Program version 1.169
; Quick counting mode
; Oligomer length 2
; Input file results/sequences/All_hpromoterRegions.fasta
; Input format fasta
; Output file results/BG_models/All_hpromoterRegions_BG_model_mkv_2.oligos
; Discard overlapping matches
; Counted on a single strand
; Background model Bernoulli
; Background estimation method
; Sequence type DNA
; Nb of sequences 20719
; Sum of sequence lengths 5179750
; discarded residues NA (quick mode) (other letters than ACGT)
; discarded occurrences NA (quick mode) (contain discarded residues)
; nb possible positions NA (quick mode)
; total oligo occurrences 5159029
; total overlapping occurrences 395007
; total non overlapping occ 4764022
; alphabet size 4
; nb possible oligomers 16
; oligomers tested for significance 0
;
; column headers
; 1 seq oligomer sequence
; 2 id oligomer identifier
; 3 occ observed occurrences
; 4 ovl_occ number of overlapping occurrences (discarded from the count)
; 5 forbocc forbidden positions (to avoid self-overlap)
#seq id occ ovl_occ forbocc
aa aa 196686 61249 196686
ac ac 224001 0 224001
ag ag 369855 0 369855
at at 167761 0 167761
ca ca 314519 0 314519
cc cc 389161 132947 389161
cg cg 340186 0 340186
ct ct 362899 0 362899
ga ga 305632 0 305632
gc gc 489607 0 489607
gg gg 403924 138139 403924
gt gt 234673 0 234673
ta ta 140333 0 140333
tc tc 304518 0 304518
tg tg 320931 0 320931
tt tt 199336 62672 199336
; Host name rsat-tagc
; Job started 2015-12-17.111121
; Job done 2015-12-17.111122
; Seconds 0.54
; user 0.54
; system 0.06
; cuser 1.2
; csystem 0.08