Genomics Analysis
| Name | Description | Sequence Type* | Link |
|---|---|---|---|
| ACT (Artemis Comparison Tool) | Synteny and comparative genomics | Nucleotide | server |
| AVID | Pairwise global alignment with whole genomes | Nucleotide | server |
| BLAT | Alignment of cDNA sequences to a genome. | Nucleotide | |
| GMAP | Alignment of cDNA sequences to a genome. Identifies splice site junctions with high accuracy. | Nucleotide | http://research-pub.gene.com/gmap |
| Splign | Alignment of cDNA sequences to a genome. Identifies splice site junctions with high accuracy. Able to recognize and separate gene duplications. | Nucleotide | http://www.ncbi.nlm.nih.gov/sutils/splign |
| Mauve | Multiple alignment of rearranged genomes (also available inside Geneious) | Nucleotide | download |
| MGA | Multiple Genome Aligner | Nucleotide | download |
| Mulan | Local multiple alignments of genome-length sequences | Nucleotide | server |
| Multiz | Multiple alignment of genomes | Nucleotide | download |
| PLAST-ncRNA | Search for ncRNAs in genomes by partition function local alignment | Nucleotide | server |
| Sequerome | Profiling sequence alignment data with major servers/services | Nucleotide/peptide | server |
| Sequilab | Profiling sequence alignment data from NCBI-BLAST results with major servers/services | Nucleotide/peptide | server |
| Shuffle-LAGAN | Pairwise glocal alignment of completed genome regions | Nucleotide | server |
| SIBsim4 / Sim4 | A program designed to align an expressed DNA sequence with a genomic sequence, allowing for introns | Nucleotide | download |
| SLAM | Gene finding, alignment, annotation (human-mouse homology identification) | Nucleotide | server |
Read more about this topic: List Of Sequence Alignment Software
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“The spider-mind acquires a faculty of memory, and, with it, a singular skill of analysis and synthesis, taking apart and putting together in different relations the meshes of its trap. Man had in the beginning no power of analysis or synthesis approaching that of the spider, or even of the honey-bee; but he had acute sensibility to the higher forces.”
—Henry Brooks Adams (1838–1918)