I don't think we capture that property. Why do you want it? If it is the nucleotide sequence you are after then do something like
seq.sublist(from, to); seq.seqString(); seq.symbolAt(index); These are SymbolList methods but a Sequence is an instanceof a SymbolList. See also the section on sequence manipulation on this webpage http://www.biojava.org/docs/bj_in_anger/index.htm - Mark "Goh khee Teck" <[EMAIL PROTECTED]> Sent by: [EMAIL PROTECTED] 10/07/2005 12:30 PM To: Biojava-l@biojava.org cc: (bcc: Mark Schreiber/GP/Novartis) Subject: [Biojava-l] Need Help Hi.. Anybody know how to retrieve the annotation property "ORIGIN" My code look like this while(sequences.hasNext()){ try { seq = sequences.nextSequence(); //Annotation Annotation anno = seq.getAnnotation(); //print each key value pair for (Iterator i = anno.keys().iterator(); i.hasNext(); ) { Object key = i.next(); System.out.println(key +" : "+ anno.getProperty(key)); }//for }//while It print out the value for each annotation key but for ORIGIN, there is nothing. ORIGIN FOR A typical genbank file SCU49845 looks like ORIGIN 1 gatcctccat atacaacggt atctccacct caggtttaga tctcaacaac ggaaccattg 61 ccgacatgag acagttaggt atcgtcgaga gttacaagct aaaacgagca gtagtcagct 121 ctgcatctga agccgctgaa gttctactaa gggtggataa catcatccgt gcaagaccaa 181 gaaccgccaa tagacaacat atgtaacata tttaggatat acctcgaaaa taataaaccg 241 ccacactgtc attattataa ttagaaacag aacgcaaaaa ttatccacta tataattcaa 301 agacgcgaaa aaaaaagaac aacgcgtcat agaacttttg gcaattcgcg tcacaaataa 361 attttggcaa cttatgtttc ctcttcgagc agtactcgag ccctgtctca agaatgtaat 421 aatacccatc gtaggtatgg ttaaagatag catctccaca acctcaaagc tccttgccga 481 gagtcgccct cctttgtcga gtaattttca cttttcatat gagaacttat tttcttattc 541 tttactctca catcctgtag tgattgacac tgcaacagcc accatcacta gaagaacaga 601 acaattactt aatagaaaaa ttatatcttc ctcgaaacga tttcctgctt ccaacatcta 661 cgtatatcaa gaagcattca cttaccatga cacagcttca gatttcatta ttgctgacag 721 ctactatatc actactccat ctagtagtgg ccacgcccta tgaggcatat cctatcggaa Regards KheeTeck _________________________________________________________________ Download MSN Messenger emoticons and display pictures. http://ilovemessenger.msn.com/?mkt=en-sg _______________________________________________ Biojava-l mailing list - Biojava-l@biojava.org http://biojava.org/mailman/listinfo/biojava-l _______________________________________________ Biojava-l mailing list - Biojava-l@biojava.org http://biojava.org/mailman/listinfo/biojava-l
