Dec 9 2004 -- Note: These files have changed.

December 9, 2004
Two changes have been made to the GFF files below. The original files that used to be found at this location are archived here.
  • First, an error in the start coordinates has been fixed. Previously, the coordinates of most binding site locations was a base to low (e.g. 245679 should have been 245680).
  • Second, information regarding the orientation of the sites is included in the files, as a "+" or "-" in the seventh column of each file.
There are no changes to the probe GFF file containing probe coordinates.

In addition, new GFF files are available below (scroll down), in which all overlapping occurences of the same motif are reported.

Highest-confidence Conservation Criteria
IGR_v24.3.p001b.GFF.gzBinding p<0.001, Conserved in at least two other yeast
IGR_v24.3.p005b.GFF.gzBinding p<0.005, Conserved in at least two other yeast
IGR_v24.3.nobind.GFF.gzNo Binding Criteria, Conserved in at least two other yeast
Intermediate-confidence Conservation Criteria
IGR_v24.2.p001b.GFF.gzBinding p<0.001, Conserved in at least one other yeast
IGR_v24.2.p005b.GFF.gzBinding p<0.005, Conserved in at least one other yeast
IGR_v24.2.nobind.GFF.gzNo Binding Criteria, Conserved in at least one other yeast
No Conservation Criteria
IGR_v24.0.p001b.GFF.gzBinding p<0.001, No Conservation Criteria
IGR_v24.0.p005b.GFF.gzBinding p<0.005, No Conservation Criteria
IGR_v24.0.nobind.GFF.gzNo Binding Criteria, No Conservation Criteria
WIBR Intergenic Array Probes
v24_probes_041004.GFF.gzProbe coordinates, including binding information at p<0.001 and p<0.005
**New** 12-09-04
For a few thresholds, we've added additional GFF files, in which we include overlapping instances of the same motif. For example, a bound, conserved sequence like this: 
TCACGTGA
might match the CBF1 motif (tCACGTG) in either orientation: 
TCACGTGA
tCACGTG  (1)
 CACGTGa (2)
Formerly, (in the files above), we report only the first (most 5') instance. In the files below, we report all instances.
Highest-confidence Conservation Criteria
IGR_v24.3.p001.allowoverlap.GFF.gzBinding p<0.001, Conserved in at least two other yeast
Intermediate-confidence Conservation Criteria
IGR_v24.2.p001.allowoverlap.GFF.gzBinding p<0.001, Conserved in at least one other yeast
No Conservation Criteria
IGR_v24.0.p001.allowoverlap.GFF.gzBinding p<0.001, No Conservation Criteria
WIBR Intergenic Array Probes