cpgplot European Bioinformatics Institute http://www.ebi.ac.uk/soaplab/emboss4/services/nucleic_cpg_islands.cpgplot http://www.ebi.ac.uk/soaplab/emboss4/services/nucleic_cpg_islands.cpgplot?wsdl Plot CpG rich areas. CpG refers to a C nucleotide immediately followed by a G. The'p'in'CpG'refers to the phosphate group linking the two bases. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/4.0/emboss/apps/cpgplot.html cpgplot Plot CpG rich areas. CpG refers to a C nucleotide immediately followed by a G. The'p'in'CpG'refers to the phosphate group linking the two bases. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/4.0/emboss/apps/cpgplot.html sequence_usa Type: string. DNA 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 sequence. Choose this parameter if you want to provide the'sequence'value as string(DNA sequence). Parameter mandatory if the sequence_usa parameter hasn't been chosen. false http://www.mygrid.org.uk/ontology#DNA_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 window Type: long. The percentage CG content and the Observed frequency of CG is calculated within a window whose size is set by this parameter. The window is moved down the sequence and these statistics are calculated at each postition that the window is moved to. This is an optional parameter. The default value is 100 100 false String minlen Type: long. This sets the minimum length that a CpG island has to be before it is reported. This is an optional parameter. The default value is 200. 200 false String minoe Type: float. This sets the minimum average observed to expected ratio of C plus G to CpG in a set of 10 windows that are required before a CpG island is reported. This is an optional parameter. The default value is 0.6 0.6 false String minpc Type: float. This sets the minimum average percentage of G plus C a set of 10 windows that are required before a CpG island is reported. This is an optional parameter. The default value is 50.0 50.0 false String graph_format Type: string. Format of the graphical output. This is an optional parameter. The allowed values for this parameter are: png, postscript, colourps, hpgl. The default is'png'. png false String plot Type: boolean(Y/N). Select this parameter to plot the melting point along the sequence. This is an optional parameter. The default is'Y'. Y false String obsexp Type: boolean (Yes/No). If this is set to'Yes'then the graph of the observed to expected ratio of C plus G to CpG within a window is displayed. This is an optional parameter. The defaut is'Yes'. true false String cg Type: boolean (Yes/No). If this is set to'Yes'then the graph of the regions which have been determined to be CpG islands is displayed. This is an optional parameter. The default is'Yes'. true false String pc Type: boolean(Yes/No). If this is set to'Yes'then the graph of the percentage C plus G within a window is displayed. This is an optional parameter. The default is'Yes'. true false String offormat Type: string. Format of the output features. This is an optional parameter. The allowed values for this parameter are: embl, genbank, ddbj, gff, acedb, swissprot. The default is'gff'. gff false String 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 outfile Returns CpG island parameters and the details of any CpG islands that are found. false String outfeat Returns CpG island features. false String Graphics_in_Postscript String Graphics false byte[] Graphics_in_PNG Returns CpG island graph in'png'format. false http://www.mygrid.org.uk/ontology#nucleotide_sequence_feature_diagram byte[][] http://www.mygrid.org.uk/ontology#displaying http://www.mygrid.org.uk/ontology#EMBL_nucleotide_sequence_database Soaplab service