MAFFT-DASH: integrated protein sequence and structural alignment.Here, we describe a web server that integrates structural alignments with the MAFFT multiple sequence alignment (MSA) tool.  MAFFT-DASH integration can be invoked with a single flag on either the web (https://mafft.cbrc.jp/alignment/server/) or command-line versions of MAFFT.  In our benchmarks using 878 cases from the BAliBase, HomFam, OXFam, Mattbench and SISYPHUS datasets, MAFFT-DASH showed 10-20% improvement over standard MAFFT for MSA problems with weak similarity, in terms of Sum-of-Pairs (SP), a measure of how well a program succeeds at aligning input sequences in comparison to a reference alignment. 
MAFFT-DASH
MAFFT-DASH: integrated protein sequence and structural alignment.Here, we describe a web server that integrates structural alignments with the MAFFT multiple sequence alignment (MSA) tool.  MAFFT-DASH integration can be invoked with a single flag on either the web (https://mafft.cbrc.jp/alignment/server/) or command-line versions of MAFFT.  In our benchmarks using 878 cases from the BAliBase, HomFam, OXFam, Mattbench and SISYPHUS datasets, MAFFT-DASH showed 10-20% improvement over standard MAFFT for MSA problems with weak similarity, in terms of Sum-of-Pairs (SP), a measure of how well a program succeeds at aligning input sequences in comparison to a reference alignment.  When MAFFT alignments were supplemented with homologous sequences, further improvement was observed. 
MAFFT
MAFFT-DASH: integrated protein sequence and structural alignment.Here, we describe a web server that integrates structural alignments with the MAFFT multiple sequence alignment (MSA) tool. 
the MAFFT multiple sequence alignment (MSA) tool
MAFFT-DASH: integrated protein sequence and structural alignment.Here, we describe a web server that integrates structural alignments with the MAFFT multiple sequence alignment (MSA) tool.  MAFFT-DASH integration can be invoked with a single flag on either the web (https://mafft.cbrc.jp/alignment/server/) or command-line versions of MAFFT.  In our benchmarks using 878 cases from the BAliBase, HomFam, OXFam, Mattbench and SISYPHUS datasets, MAFFT-DASH showed 10-20% improvement over standard MAFFT for MSA problems with weak similarity, in terms of Sum-of-Pairs (SP), a measure of how well a program succeeds at aligning input sequences in comparison to a reference alignment. 
MAFFT-DASH