| Name | Type | Description |
|---|
| seqname | AjPStr | Sequence name
|
| cod | AjPStr | Matrix name
|
| acc | AjPStr | Matrix accession number
|
| tit | AjPStr | Matrix title
|
| pat | AjPStr | Pattern
|
| n | ajuint | Number of motifs in fingerprint
|
| len | ajuint | Lengths of motifs
|
| thresh | ajuint | % of maximum score for matrix
|
| max | ajuint | Maximum score for matrix
|
| element | ajuint | Number of matching element
|
| start | ajuint | Start of match
|
| end | ajuint | End of match
|
| score | ajuint | Score of match
|
| hpe | ajuint | Hits per element (so far)
|
| hpm | ajuint | Hits per motif (so far)
|
| all | AjBool | Can be set if all elements match
|
| ordered | AjBool | Can be set if "all" and in order
|
| forward | AjBool | on forward strand
|
| mm | ajuint | Number of mismatches
|
| cut1 | ajint | First 5' cut
|
| cut2 | ajint | First 3' cut
|
| cut3 | ajint | Reverse 5' cut
|
| cut4 | ajint | Reverse 3' cut
|
| len1 | ajuint | Fragment length 5'
|
| len2 | ajuint | Fragment length 3'
|
| len3 | ajuint | Fragment length reverse 5'
|
| len4 | ajuint | Fragment length reverse 3'
|
| circ12 | AjBool | Circular for cut1 and/or cut2
|
| circ34 | AjBool | Circular for cut3 and/or cut4
|
| iso | AjPStr | Holds names of isoschizomers
|