Scan motif
computase_scan_motifScan nucleotide sequences for IUPAC motifs on forward, reverse, or both strands, with configurable overlapping matches and result limits.
Instructions
Scan an IUPAC motif on the forward, reverse, or both strands.
Input Schema
| Name | Required | Description | Default |
|---|---|---|---|
| motif | Yes | IUPAC nucleotide pattern. | |
| strand | No | Strand orientation to scan. | forward |
| sequence | Yes | Raw nucleotide sequence or one FASTA record; IUPAC codes are accepted. The normalized sequence is limited to 5,000,000 nucleotides. | |
| max_matches | No | Maximum returned sites. | |
| overlapping | No | Report overlapping sites. |
Output Schema
| Name | Required | Description | Default |
|---|---|---|---|
| motif | Yes | Normalized IUPAC motif. | |
| strand | Yes | Requested strand policy. | |
| matches | Yes | Motif occurrences in coordinate order. | |
| truncated | Yes | Whether occurrences were omitted by max_matches. | |
| parameters | No | Effective operation parameters, excluding the input sequence. | |
| total_found | Yes | Total occurrences before result limiting. | |
| computase_version | No | Computase version used for the computation. | 0.1.1 |
| coordinate_system | No | 0-based-half-open |