PatSearch -- a program for the detection of patterns and structural motifs in nucleotide sequences
What you can do:
Search for specific combinations of oligonucleotide consensus sequences, secondary structure elements and position-weight matrices in given DNA sequences.
Highlights:
- PatSearch is a flexible and fast pattern matcher able to search for specific combinations of oligonucleotide consensus sequences, secondary structure elements and position-weight matrices.
- It can also allow for mismatches/mispairings below a user fixed threshold.
- The program has successfully used in the search of complex patterns such as those of the iron responsive element hairpin-loop structure, the p53 responsive element and a promoter module containing CAAT-, TATA- and cap-boxes.
Keywords:
- iron responsive elements
- iron responsive element prediction tool
- p53 responsive elements
- p53 responsive element prediction tool
- transcription factor binding site analysis tool
- DNA-binding sites prediction tool
- promoter analysis tool
- transcription starting site prediction tool
- transcription factor binding sites
- transcription factor binding site visualization tool
- transcription factors
- cis-elements
- cis-elements prediction tool
- regulatory element prediction tool
- promoter element prediction tool
- DNA structure motif analysis tool
- DNA secondary structure analysis tool
Literature & Tutorials:
This record last updated: 06-15-2005