PATMATDB(1e)

📦 version 6.6.0, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu questing, ubuntu resolute, ubuntu stonking

💖 PATMATDB 💖 (that's section 1e, bestie)

okay so real talk, this is patmatdb from the EMBOSS manual for Debian, and she is that girl. Let's get into it.

✨ NAME ✨

patmatdb — searches protein sequences with a sequence motif 🧬🔍

🌸 SYNOPSIS 🌸

patmatdb -sequence seqall -motif string -outfile report

patmatdb -help

🦋 DESCRIPTION 🦋

patmatdb is a command line program from EMBOSS ("the European Molecular Biology Open Software Suite"). No cap, that's the whole suite. She's part of the "Protein:Motifs" command group(s), so if you're deep in motif land you already know. 💅

✨ OPTIONS ✨

🎀 Input section 🎀

  • -sequence seqall — yeah, that's the input sequences, that's it, that's the whole section, we love a minimal queen 👑

💜 Required section 💜

  • -motif string — okay this one is mandatory, no skipping. Patterns for patmatdb are based on the format of pattern used in the PROSITE database. For example: '[DE](2)HS{P}X(2)PX(2,4)C' means two Asps or Glus in any order followed by His, Ser, any residue other then Pro, then two of any residue followed by Pro followed by two to four of any residue followed by Cys. And the search is case-independent, so 'AAA' matches 'aaa'. fr fr, casing does not matter here. 🫶

🌈 Output section 🌈

  • -outfile report — where the results go, into a report. slay 💖

💀 BUGS 💀

Found a bug? Not the vibe, but okay, tell someone. Bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or directly to the EMBOSS developers (http://sourceforge.net/tracker/?group_id=93650&atid=605031). They wanna hear it. 🐛

👀 SEE ALSO 👀

patmatdb is fully documented via the tfm(1) system. iykyk, go read the tfm page if you want the deep lore. 📖✨

👑 AUTHOR 👑

Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>

  • Wrote the script used to autogenerate this manual page. (yes, a script wrote this. she's iconic for it. 🎀)

This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package. It can be redistributed under the same terms as EMBOSS itself. so like, share responsibly bestie 💜

EMBOSS 6.4.0, dated 05/11/2012, and this whole page is PATMATDB(1e) — that's a wrap, go motif-hunt, mwah 🫶💖✨

📦 where this page comes from