profit European Bioinformatics Institute http://www.ebi.ac.uk/soaplab/emboss4/services/nucleic_profiles.profit http://www.ebi.ac.uk/soaplab/emboss4/services/nucleic_profiles.profit?wsdl Profit takes a simple frequency matrix produced by prophecy and searches with this to find matches in the input sequence(s) you are searching. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/4.0/emboss/apps/profit.html profit Profit takes a simple frequency matrix produced by prophecy and searches with this to find matches in the input sequence(s) you are searching. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/4.0/emboss/apps/profit.html sequence_usa Type: string. DNA, RNA, or protein 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 sequence_direct_data parameter but not both together. Parameter mandatory if the sequence_direct_data parameter has not been chosen. false String sequence_direct_data Type: string. DNA, RNA or protein sequence sequence. Choose this parameter if you want to provide the 'sequence' value as string (DNA, RNA or protein sequence). Parameter mandatory if the sequence_usa parameter hasn't been chosen. false http://www.mygrid.org.uk/ontology#biological_sequence http://www.mygrid.org.uk/ontology#single_sequence_format String sformat 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. By default the service autodetects the sequence format. false String sbegin Type: long. The first position to be used in the sequence, for example: sbegin=1 (default value) means start with the first base in the sequence. This is an optional parameter. false String send Type: long. The last position to be used in the sequence. This is an optional parameter. By default it is the end the sequence. false String sprotein Type: boolean. Is the sequence a protein? This is an optional parameter. By default the service can autodetect if a sequence is a nucleotide or protein sequence. false String snucleotide Type: boolean. Is the sequence a nucleotide? This is an optional parameter. By default the service can autodetect if a sequence is a nucleotide or protein sequence. false String sreverse Type: boolean. Use reverse complement of the nucleic acid sequence. This is an optional parameter. False by default. false String slower Type: boolean. Convert the sequence to lower case. This is an optional parameter. False by default. false String supper Type: boolean. Convert the sequence to UPPER case. This is an optional parameter. False by default. false String infile_direct_data Type: string. Profile or weight matrix. This can be the output of 'prophecy' soaplab service. This is a mandatory parameter if the 'infile_url' parameter is not selected. Both parameters are mutually exclusive. false String infile_url Type: string. URL of profile or weight matrix. This can be the output of 'prophecy' soaplab service. This is a mandatory parameter if the 'infile_direct_data' parameter is not selected. Both parameters are mutually exclusive. false String report Type: string. A general report for the underlying analysis job. String detailed_status Type: long. The exit code of the underlying analysis job, 0 means the job returned normally. String outfile The ouput is a list of three columns. The first column is the name of the matching sequence found. The second is the start position in the sequence of the match. The third column (after the word 'Percentage:') is the percentage of the maximum possible score (sum of the highest value at each position in the frequency matrix). http://www.mygrid.org.uk/ontology#multiple_sequence_alignment_report String http://www.mygrid.org.uk/ontology#multiple_local_aligning http://www.mygrid.org.uk/ontology#EMBL_nucleotide_sequence_database Soaplab service