MatrixMatchMaker Web interface MMM finds the sub-matrices of maximum size from two distance matrices. <>
The MMM algorithm has been sped up tremendously from the original version and is now available on this server. The Human Protein Coevolution Network by Tillier, E. R. M and R. L Charlebois (2009) Genome Research A New, Fast Algorithm for Protein Coevolution Detection using Maximum Compatible Cliques by Alex Rodionov, Alexandr Bezginov, Jonathan Rose, and Elisabeth R.M. Tillier (2011, Algorithms for Molecular Biology 6:17) |
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MMM requires 2 input files with a minimum of 3 (homologous) sequences each. Only plain text files in FASTA format! For example: >9606|gi:57099 FAKE gene myfakegene >YEAST|not a real gene notarealgene butcoulditbe >Pantoea|gi|291618003|ref|YP_003520745.1| LacI MTSRSVTLDDVAQLAGVSYQTVSRVLNRSEQVSPRTREKVEAAMQQLNYVPNRVAQQLAGKATRTLGLAT SNLALMAPAQIASAIQQRAASAGYHLVIAMDSEDNAEATVNELMAQRVDAVLINMPLEAAEAEKIRVMCG KKPVLFLDADPHALVSHCQYSNEQGARAAVAHLIALGHRQIGLLNGPVRSVSARQREAVWRQALAEHQLS PCCVLRGDWSAKSGYQAMLAQLPNALPQALLVANDEMALGAMRALHQHGVAIPGDISLVGHDDTAESAWY QPPLTTIRQDLQQLGTHSVDQVLAELRGEAVASRTLEPMLVIRETTAAPASQNLDLSDLARQLQQIARRL TR >9606|SEC mysecondhumanfakegene click here for an actual example Two MMM results files are output: |
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