1. Scansite, can be used to search for short motifs using positional scoring matrices derived from phage display data

2. ELM server is another resource to look for a relatively broad range of short motifs

3. HITS can be used to search for novel short motifs in several databases

4. Prosite contains mostly motifs for domains but has a few short motifs as well

5. Expasy has several resources for prediction of individual short motifs