<HTML><BODY style="word-wrap: break-word; -khtml-nbsp-mode: space; -khtml-line-break: after-white-space; "><BR><DIV><DIV>On Aug 11, 2006, at 12:18 PM, Koen van der Drift wrote:</DIV><BLOCKQUOTE type="cite"><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Davide,</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">BioCocoa can read fasta files, even with multiple entries.<SPAN class="Apple-converted-space"> </SPAN>But maybe blast formatted databases have a different format. Maybe you could point to an example file, so we can see how to implement it?</DIV></BLOCKQUOTE><BR></DIV><DIV>Actually you can download some blast formatted db from NCBI ftp site (ftp://ftp.ncbi.nih.gov/blast/db). They are in binary format and indexed, I assume they are some kind of dictionary dumps, so that you can retrieve sequences with an accession number. I haven't checked NCBI docs and sources, yet :-(</DIV><DIV><BR class="khtml-block-placeholder"></DIV><DIV>d</DIV><BR><DIV> <SPAN class="Apple-style-span" style="border-collapse: separate; border-spacing: 0px 0px; color: rgb(0, 0, 0); font-family: Lucida Grande; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-align: auto; -khtml-text-decorations-in-effect: none; text-indent: 0px; -apple-text-size-adjust: auto; text-transform: none; orphans: 2; white-space: normal; widows: 2; word-spacing: 0px; "><SPAN class="Apple-style-span" style="border-collapse: separate; border-spacing: 0px 0px; color: rgb(0, 0, 0); font-family: Lucida Grande; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-align: auto; -khtml-text-decorations-in-effect: none; text-indent: 0px; -apple-text-size-adjust: auto; text-transform: none; orphans: 2; white-space: normal; 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