How to Extract Multiple Sequence from Multi Fasta File by sequence names

Question

[lukhanyomakhabane]

How to Extract Multiple Sequence from Multi Fasta File by sequence name. I have sorted out TE consensus sequences into order and superfamilies according PASTEC outputs, but now I want to build TE libraries for class I and class II TE in order to perform TE annotation step. But now I am confused as to how can I extract those sequences. Please help me

[rpolicastro]

To make it easier to help you, consider adding to your post the first few sequences from your FASTA file, and an example of a sequence name you will use in your query.

Answer 1

[GenoMax]

This question has been asked multiple times. Here are two threads with plenty of options:
Extract fasta sequences from a file using a list in another file.
How do I extract Fasta Sequences based on a list of IDs?

Answer 2

[nonaddldy]

Maybe you can use TBtools https://github.com/CJ-Chen/TBtools, which is a multifunctional tools for sequence process.

Answer 3

[wulj2]

hopefully this will work https://github.com/wulj2/fa2fas