2634 days ago
DAGchainer: Computing Chains of Syntenic Genes in Complete Genomes
...mologs, maximally scoring chains of ordered gene pairs are computed and reported. This algorithm can be used to mine large evolutionary conserved regions of genomes between two organi...2632 days ago
Laj: viewing and manipulating the output from pairwise alignment programs
...a diagram showing the locations of exons and repeats, and annotation links to other web sites containing additional information about particular regions. The program is written in J...2621 days ago
2615 days ago
NCBI Prokaryotic Genome Annotation Pipeline
...des prediction of protein-coding genes, as well as other functional genome units such as structural RNAs, tRNAs, small RNAs, pseudogenes, control regions, direct and inverted repeats,...2545 days ago
CAR: Reconstructing Contiguous Regions of an Ancestral Genome
We describe a new method for predicting the ancestral order and orientation of those intervals from their observed adjacencies in modern species. We combine the resul...2543 days ago
AVID: A Global Alignment Program
...mory efficient, and practical for sequence alignments of large genomic regions up to megabases long. We pres...om the comparison of assemblies to alignment of large syntenic genomic regions and whole genome human/mouse...2537 days ago
dbCAN: a web server and DataBase for automated Carbohydrate-active enzyme ANnotation
...data freely available to the public, including sequence alignments, hidden markov models (HMMs) and phylogenies of the signature domain regions in each and every CAZyme fami...2532 days ago
slacTree: SVG Large Annotated Circular Tree drawing
...asy to further customize SVG is used because it is a scalable format allowing for very small representations of entire trees or highly magnified regions with unlimited resolution Ci...2497 days ago
MGRA: Breakpoint graphs and ancestral genome reconstructions
...logenetic tree. The phylogenetic tree may be also specified completely or partially, in the latter case MGRA can reconstruct conserved ancestral regions (CARs) of the ancestral genom...2475 days ago