|
Dot Plots |
| Program name | Source | Description |
|---|
| Compare |
GCG |
Compares two sequences to make a file for DotPlot |
| dotmatcher |
EMBOSS |
Produces a dotplot of two sequences. |
| DotPlot |
GCG |
Creates a dot plot using a file from Compare or StemLoop. |
| dottup |
EMBOSS |
DNA sequence dot plot |
| polydot |
EMBOSS |
Multiple dotplot |
| sip4 |
Staden |
Compares pairs of sequences. It includes dot plots, finding matching words, global and local
optimal alignments and statistical evaluation of matches. |
|
Word Based Comparisons |
| Program name | Source | Description |
|---|
| seqmatchall |
EMBOSS |
All against all word based sequence comparison |
| sip4 |
Staden |
Compares pairs of sequences. It includes dot plots, finding matching words, global and local
optimal alignments and statistical evaluation of matches. |
| supermatcher |
EMBOSS |
Finds a match of one sequence against one or more sequences (for Large Sequences) |
| wordmatch |
EMBOSS |
Finds all exact matches of a given size between 2 DNA sequences |
|
Codon Based Comparisons |
| Program name | Source | Description |
|---|
| codcmp |
EMBOSS |
Codon usage table comparison |
| Correspond
| GCG |
Compares patterns of codon usage. |
