Finds homologues for the given human gene (Ensembl gene ID) in R. Norvegicus and M. Musculus, search for SNPs in the region 1000bp upstream and downstream from all genes (including original search and homologues) producing a SNP report and in addition perform a multiple alignment on all homologues against the original gene sequence. Human gene id is hardcoded to ENSG00000086506 i = Integer.parseInt(input); output = ""+(i+1000); input output i = Integer.parseInt(input); output = ""+(i - 1000); input output result = strand + "," + chromStart + "," + chrom + "," + snpID; strand chromStart chrom snpID result i = Integer.parseInt(input); output = ""+(i-1000); input output i = Integer.parseInt(input); output = ""+(i+1000); input output ENSG00000086506 i = Integer.parseInt(input); output = ""+(i-1000); input output i = Integer.parseInt(inout); output = ""+(i+1000); inout output result = strand + "," + chromStart + "," + chrom + "," + snpID; strand chrom chromStart snpID report fastaSeq = ">" + seqID + '\n' + seq + '\n'; seqID seq fastaSeq fastaSeq = ">" + seqID + '\n' + seq + '\n'; seqID seq fastaSeq fastaSeq = ">" + seqID + '\n' + seq + '\n'; seqID seq fastaSeq Rattus norvegicus genes (RGSC3.4) Mus musculus genes (NCBIM36) Homo sapiens genes (NCBI36) Rattus norvegicus SNPs (dbSNP 125) Rattus norvegicus genes (RGSC3.4) Mus musculus genes (NCBIM36) Mus musculus SNPs (dbSNP 126; Sanger) Homo sapiens genes (NCBI36) Homo sapiens genes (NCBI36) Homo sapiens SNPs (dbSNP 125) result = strand + "," + chromStart + "," + chrom + "," + snpID; strand chromStart chrom snpID result ALIGNED 15.00 6.66 15.00 6.66 30 0.50 iub iub http://www.vbi.vt.edu/~pathport/services/wsdls/beta/msagt.wsdl nucleotide_Alignment org.embl.ebi.escience.scuflworkers.java.StringListMerge org.embl.ebi.escience.scuflworkers.java.StringListMerge org.embl.ebi.escience.scuflworkers.java.StringListMerge org.embl.ebi.escience.scuflworkers.java.StringListMerge text/xml