|or Paste TF binding site alignment or PWM here:|
|File containing list of putative hits to score:|
Please submit an ungapped TF Alignment or a position weight matrix.   Alignment must have lines all the same length, containing only [acgtnACGTN]. Position weight matrix must at least six lines, with each line containing four integers separated by whitespace. Results will appear on a randomly named webpage which will be deleted after two hours.
|Note:    Binding Site Alignment must have at least 6 conserved columns (as judged by HMMER) or the search cannot be run. Please read the CisOrtho manual for further details.|