Biology Forum › Bioinformatics › how to SAVE in fasta?

last updated by fcs 14 years, 4 months ago
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10 replies
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    • April 15, 2010 at 8:30 pm #13108
      turlaa
      Participant

      Hi guys!
      I have probably silly problem. I work on Join Genome institute software and I have my results in fasta format (i mean it looks like fasta) BUT I don’t know how to save it in fasta format so I can open it in mega-they just don’t have saving option. Any ideas?

    • April 15, 2010 at 8:41 pm #99026
      JackBean
      Participant

      What doesn’t have saving option?

    • April 15, 2010 at 8:44 pm #99028
      turlaa
      Participant

      well joint genome institute web page they show me my gene list and I have option to see it in fasta format but I can’t save it I just have empty page with only fasta on it.

    • April 15, 2010 at 8:45 pm #99030
      JackBean
      Participant

      than just copy and paste into text file 😆

    • April 15, 2010 at 8:50 pm #99032
      turlaa
      Participant

      well it isn’t that easy cause I have to open it later in mega4 so it have to be blahblahblah.fasta not blahblahblah.txt and here is my problem cause all convertors just show output but don’t save with the right extensions

    • April 15, 2010 at 8:51 pm #99033
      turlaa
      Participant

      thank you for bearing with me!

    • April 15, 2010 at 9:01 pm #99035
      JackBean
      Participant

      My mentor told me in the beginning: "Just forget about what is Microsoft pushing you into, forget everything about the extensions."
      This is just plain text, you can give it any extension you want – *.txt, *.fasta, *.fsa, *.fas, *.tab… whatever. I have one file ending with .friends (by the Tv series;) 😆 But you have it to be just plain text in format:

      >your_ID whatever you want to have here
      SEQUENCEOFYOURPROTEINMOSTLIKELYWITH60
      LETTERSPERLINE(ORMOREORLESS),BUTDEFINIT
      ELLYWITHOUTSPACES
      >ID2 description of your second sequence
      ANDHERESEQUENCEOFYOURSECONDPROTEINA
      GAINWITHTHESAMEFORMATING

      OK? So, just copy your sequences,put it into Notepad (not Word!!!) and put Save As and choose "All files" and into the name put "something.fasta" or .fsa or .fas, that doesn’t matter so much, the format is important 😉

    • April 15, 2010 at 9:06 pm #99036
      turlaa
      Participant

      I will try just now! thank you!

    • April 15, 2010 at 9:16 pm #99037
      JackBean
      Participant

      You’re welcome 🙂 One doesn’t understand, how much important the formatting is, unless s/he doesn’t write some program…

    • April 15, 2010 at 9:46 pm #99038
      turlaa
      Participant

      Oh I am far from that! I’m very thankful for your help. anyway MEGA decided not to work with me good format or wrong(it just show some error)

    • August 11, 2010 at 4:09 am #100847
      fcs
      Participant

      What kind of error did you see from MEGA?

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