You aim to search for promoter or methylation recognition sites in nucleotide strings and you can’t find the tool to do so? Trying to detect bipartite sequence patterns divided by a varying or specific number of nucleotides?
This tool will make your scientific life much easier.
The user-friendly MAC OS application allows you to search in the DNA file of your choice for bipartite patterns and lets you choose the offsets. The findings include the number of occurrences for each different offset and the location in the DNA string.
Applications
- General purpose nucleotide pattern search in DNA files.
- General purpose nucleotide pattern search in DNA files.
- Sequence finder to detect patterns in DNA sequences, such as
- open reading frame,
- start codon,
- stop codon,
- promoter sites
- or any other nucleotide motif or string nucleotides
- Detect recognition sequences of enzymes such as methylase and restriction enzymes.
- Search for specific genetic motifs such as
- insertion sequences,
- repetetive extragenic sequences (REP), or more
Features
| Search Pattern | 2 alphanumeric fields (start – end) to enter an unlimited sequence of nucleotides |
| Pattern distance | 2 numeric fields (offset – max) to define a nucleotide distance between start and end pattern |
| Calculation | Single pattern – finds pattern defined in start and end fields |
| Multiple pattern – defining offset and max in one search, calculates a range of pattern at once. | |
| Input format | FASTA |
| Output format | Text, CSV |
| Results | Details / Summary Genome name – genome length – time stamp Search pattern – matches (direct / reverse strand) match positions (direct strand / reverse strand) |
