1: Input file format

• TRANSFAC Matrix (only matrix section (beginning with "01 ..." needed):
  

AC M00447
XX
ID V$AR_Q2
XX
DT 22.08.2001 (created); mas.
DT 07.12.2001 (updated); mas.
CO Copyright (C), Biobase GmbH.
XX
NA AR
XX
DE androgen receptor
XX
BF T00040; AR; Species: human, Homo sapiens.
BF T00041; AR; Species: mouse, Mus musculus.
BF T00042; AR; Species: rat, Rattus norvegicus.
BF T04652; AR; Species: baboon, papio hamadryas.
BF T04653; AR; Species: Chimpanzee, Pan troglodytes.
BF T04654; AR; Species: macaque, macaca fascicularis.
BF T04655; AR; Species: lemur, eulemur fulvus collaris.
XX
P0 A C G T

01 6 0 1 0 A
02 1 0 6 0 G
03 3 0 0 4 W
04 5 0 2 0 A
05 0 5 2 0 C
06 4 1 1 1 A
07 0 1 1 5 T
08 1 1 3 2 N
09 3 1 0 3 W
10 2 0 0 5 T
11 0 0 7 0 G
12 0 0 0 7 T
13 2 0 0 5 T
14 0 7 0 0 C
15 1 0 0 6 T

XX
BA 7 genomic binding sites
XX
BS R03286; Start: 1; Length: 15; Gaps:; Orientation: p.
BS R10144; Start: 1; Length: 15; Gaps:; Orientation: p.
BS R10148; Start: 1; Length: 15; Gaps:; Orientation: p.
BS R10149; Start: 1; Length: 15; Gaps:; Orientation: p.
BS R10150; Start: 1; Length: 15; Gaps:; Orientation: p.
BS R10151; Start: 1; Length: 15; Gaps:; Orientation: p.
BS R10152; Start: 1; Length: 15; Gaps:; Orientation: p.
XX
CC inverted repeat of two hexameric half-sites (pos. 1-6, pos. 10-15) with a
CC spacer of 3 bp; absolute frequencies stated
XX
RN [1]
RA TRANSFAC_Team.
RT Binding matrices compiled for TRANSFAC; URL:
RT http://www.gene-regulation.com/pub/databases/transfac/tf_reports/tf_report_2_0002.html
RL TRANSFAC Reports 2:0002 (2001).
XX
//