tranalign European Bioinformatics Institute http://www.ebi.ac.uk/soaplab/emboss4/services/alignment_multiple.tranalign http://www.ebi.ac.uk/soaplab/emboss4/services/alignment_multiple.tranalign?wsdl Align nucleic coding regions given the aligned proteins. It takes a set of (unaligned) nucleic sequences and a set of aligned protein sequences. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/4.0/emboss/apps/tranalign.html tranalign Align nucleic coding regions given the aligned proteins. It takes a set of (unaligned) nucleic sequences and a set of aligned protein sequences. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/4.0/emboss/apps/tranalign.html asequence_usa Type: string. Nucleotide sequence. The Uniform Sequence Address, or USA, is a standard way of specifying a sequence to be read into a program in EMBOSS. The most common ways of specifying a sequence is to type (database:entry), where database can be embl, uniprot or swissprot and entry is either the sequence`s entry or ID name, or its Accession number in that database. For example:database:accession =>embl:X65923 or swissprot:Q7M4G0 | database:entry_name =>swissprot:AMIC_PSEAE | database:ID_name =>embl:paamir. Choose either this parameter or the asequence_direct_data parameter but not both together. Parameter mandatory if the asequence_direct_data parameter hasn't been chosen. false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter asequence_direct_data Type: string. Nucleotide sequence. Choose this parameter if you want to provide the 'asequence' value as string. Parameter mandatory if the asequence_usa parameter hasn't been chosen. false http://www.mygrid.org.uk/ontology#nucleotide_sequence http://www.mygrid.org.uk/ontology#single_sequence_format String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter sformat1 Type: string. Specifies the format of the input sequence. This is an optional parameter. The allowed values for this parameter are: gcg, gcg8, embl, swiss, fasta, ncbi, genbank, nbrf, pir, codata, strider, clustal, phylip, acedb, msf, jackknifer, jackknifernon, nexus, nexusnon, treecon, mega, meganon, ig, staden, text, raw. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter sbegin1 Type: long. The first position to be used in the sequence, for example: sbegin=1 means start with the first base in the sequence. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter send1 Type: long. The last position to be used in the sequence. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter sprotein1 Type: boolean. Is the sequence a protein? This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter snucleotide1 Type: boolean. Is the sequence a nucleotide? This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter sreverse1 Type: boolean. Use reverse complement of the nucleic acid sequence. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter slower1 Type: boolean. Convert the sequence to lower case. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter supper1 Type: boolean. Convert the sequence to UPPER case. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter bsequence_usa Type: string. Protein sequence with gaps. The Uniform Sequence Address, or USA, is a standard way of specifying a sequence to be read into a program in EMBOSS. The most common ways of specifying a sequence is to type (database:entry), where database can be embl, uniprot or swissprot and entry is either the sequence`s entry or ID name, or its Accession number in that database. For example:database:accession =>embl:X65923 or swissprot:Q7M4G0 | database:entry_name =>swissprot:AMIC_PSEAE | database:ID_name =>embl:paamir. Choose either this parameter or the asequence_direct_data parameter but not both together. Parameter mandatory if the asequence_direct_data parameter hasn't been chosen.t_data parameter but not both together. Parameter mandatory if the bsequence_direct_data parameter hasn't been chosen. false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter bsequence_direct_data Type: string. Protein sequence with gaps. Choose this parameter if you want to provide the 'bsequence' value as string. Parameter mandatory if the bsequence_usa parameter hasn't been chosen. false http://www.mygrid.org.uk/ontology#protein_sequence http://www.mygrid.org.uk/ontology#single_sequence_format String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter sformat2 Type: string. Specifies the format of the input sequence. This is an optional parameter. The allowed values for this parameter are: gcg, gcg8, embl, swiss, fasta, ncbi, genbank, nbrf, pir, codata, strider, clustal, phylip, acedb, msf, jackknifer, jackknifernon, nexus, nexusnon, treecon, mega, meganon, ig, staden, text, raw. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter sbegin2 Type: long. The first position to be used in the sequence, for example: sbegin=1 means start with the first base in the sequence. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter send2 Type: long. The last position to be used in the sequence. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter sprotein2 Type: boolean. Is the sequence a protein? This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter snucleotide2 Type: boolean. Is the sequence a nucleotide? This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter sreverse2 Type: boolean. Use reverse complement of the nucleic acid sequence. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter slower2 Type: boolean. Convert the sequence to lower case. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter supper2 Type: boolean. Convert the sequence to UPPER case. This is an optional parameter. false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter table Type: string. Genetic codes. This is an optional parameter. The allowed values for this parameter are: 0 (Standard) | 1 (Standard (with alternative initiation codons)) | 2 (Vertebrate Mitochondrial) | 3 (Yeast Mitochondrial) | 4 (Mold, Protozoan, Coelenterate Mitochondrial and Mycoplasma/Spiroplasma) | 5 (Invertebrate Mitochondrial) | 6 (Ciliate Macronuclear and Dasycladacean) | 9 (Echinoderm Mitochondrial) | 10 (Euplotid Nuclear) | 11 (Bacterial) | 12 (Alternative Yeast Nuclear) | 13 (Ascidian Mitochondrial) | 14 (Flatworm Mitochondrial) | 15 (Blepharisma Macronuclear) | 16 (Chlorophycean Mitochondrial) | 21 (Trematode Mitochondrial) | 22 (Scenedesmus obliquus) | 23 (Thraustochytrium Mitochondrial) The default value is 0. 0 false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter osformat Type: string. Format of the output sequence (outseq). This is an optional parameter. The allowed values for this parameter are: gcg, gcg8, embl, swiss, fasta, ncbi, genbank, nbrf, pir, codata, strider, clustal, phylip, acedb, msf, jackknifer, jackknifernon, nexus, nexusnon, treecon, mega, meganon, ig, staden, text, raw. The default value is "fasta". fasta false String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter report Type: string. A general report for the underlying analysis job. false String detailed_status Type: long. The exit code of the underlying analysis job, 0 means the job returned normally. false String outseq Returns a multiple sequence alignment report. false http://www.mygrid.org.uk/ontology#multiple_sequence_alignment_report String http://www.mygrid.org.uk/mygrid-moby-service#secondaryParameter http://www.mygrid.org.uk/ontology#pairwise_local_aligning Soaplab service