nucleotide_Alignment Virginia Bioinformatics Institute http://pathport.bioinformatics.vt.edu:6565/axis/services/msa http://pathport.vbi.vt.edu/services/wsdls/beta/msa.wsdl Wraps ClustalW program for multiple sequence alignment of nucleotide sequences. It calculates the best match for the given sequences, and lines them up so that the identities, similarities and differences can be seen. nucleotide_Alignment <s:arbitrarywsdl xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:wsdl>http://pathport.vbi.vt.edu/services/wsdls/beta/msa.wsdl</s:wsdl><s:operation>nucleotide_Alignment</s:operation></s:arbitrarywsdl> Wraps ClustalW program for multiple sequence alignment of nucleotide sequences. It calculates the best match for the given sequences, and lines them up so that the identities, similarities and differences can be seen. in0:sequence nucleotide_AlignmentRequest List of nucleotide sequences in fasta format. For example: >sequence1 AGGACAGCAACCCCATGCAGGAGCTGCAGAAGCAGGCAGAGCTGATGGAATTTGAGATTGCACT GAAGGCCCTCTCAGTACTACGCTACATCACAGACTGTGTGGACAGCCTCTCTCTCAGCACCTTGAGCCGT >sequence2 GCTGCAGCAGTTCGAGGGCAGCCGTTGGCATACTGTGGCCCCCTCAGAGCAGCAAAAGCTGAGCAAGTTGGACGGGCAAGTGTGGATCGCCCTGTACAACCTGCTGCTAAGCCCTGAGGCTCAGGCGCGCTACTGCCTCACAAGTTTTGCCAAGGGACGGCTACTCAAGCTTCGGGCCTTCCTCACAGACACACTGCTGG false http://www.mygrid.org.uk/ontology#nucleotide_sequence http://www.mygrid.org.uk/ontology#fasta_format String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in1:outOrder nucleotide_AlignmentRequest Output order. Select one of the following 2 options:ALIGNED |INPUT| ALIGNED false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in2:name nucleotide_AlignmentRequest Optional parameter. Sequence names or IDs false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter in3:gapOPenPenalty nucleotide_AlignmentRequest Gap Open Penalty (Pairwise Alignment). For example 15.00 15.00 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in4:gapExtensionPenalty nucleotide_AlignmentRequest Gap Extension Penalty (Pairwise Alignment). For example 6.66 6.66 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in5:mulgapOPenPenalty nucleotide_AlignmentRequest Multiple Gap Open Penalty (Multiple Alignment). For example 15.00 15.00 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in6:mulgapExtensionPenalty nucleotide_AlignmentRequest Multiple Gap Extension Penalty (Multiple Alignment). For example 6.66 6.66 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in7:divergence nucleotide_AlignmentRequest Percent of divergence. For example 30 30 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in8:tranWeight nucleotide_AlignmentRequest Weight of transition. For example 0.5 0.5 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in9:pairDNAMatrix nucleotide_AlignmentRequest DNA Weight Matrix (Pairwise Alignment). Select one of the following options:iub|clustalw| iub false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in10:multiDNAMatrix nucleotide_AlignmentRequest DNA weight Matrix (Multiple Alignment). Select one of the following options:iub|clustalw| iub false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter nucleotide_AlignmentReturn nucleotide_AlignmentResponse Return a Multiple Sequence Alignment report in XML format. false http://www.mygrid.org.uk/ontology#multiple_sequence_alignment_report http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter http://www.mygrid.org.uk/ontology#global_aligning WSDL service