making a multi-fasta file out of 9 separate fasta file

Question

[rupashree.choudhury]

Hi

I want to do a python task which involves extracting the sequence from a multi-fasta file using a file of IDs for Mycosphaerella graminicola genome. I do not have data(multi-fasta file) for this task. Therefore, I downloaded from ENA using the following link. https://www.ebi.ac.uk/ena/data/search?query=Mycosphaerella+graminicola. Now I have 9 separate fasta files containing Mycosphaerella chr 3,chr 4,chr 5, chr 6, chr 10, chr 12, chr 13, chr 15, chr 19,chr 21 whole genome short gun sequencing.

My question 1)how to make a single multi-fasta file using these separate 9 fasta files. 2) Is the multi-fasta file available on web straightway?

Any Help would be highly appreciated! Thanks

[rupashree.choudhury]

Thanks genomax cpad0112 for your help

[rupashree.choudhury]

Thanks genomax and cpad0112 for your help.

Answer 1

[h.mon]

1) how to make a single multi-fasta file using these separate 9 fasta files.

cat *.fasta > Mgraminicola.fasta

But why don't you use GCA_000219625.1, it seems the assembly is at chromosome level, with 21 chromosomes.

[GenoMax]

May be better to do cat chr*.fasta > Mgraminicola.fasta.

[rupashree.choudhury]

Thanks h.mon for your help

[WouterDeCoster]

If an answer was helpful you should upvote it, if the answer resolved your question you should mark it as accepted.

Answer 2

[cpad0112]

May be this also works:

$ awk "1" chr*.fa > out.fa