<p>I have fasta file with alingned several sequences (from MUSCLE), when I open it (e.g. notepad++) they look like:
<a href="https://i.sstatic.net/SHsd1.png" rel="nofollow noreferrer"><img src="https://i.sstatic.net/SHsd1.png" alt="enter image description here"></a></p>

<p>And I want dot format of identities like <a href="https://i.sstatic.net/suH4J.png" rel="nofollow noreferrer"><img src="https://i.sstatic.net/suH4J.png" alt="enter image description here"></a> and then save it in txt file.</p>

<p>I failed using MEGA, BioEdit, Jalview and CodonCode, how can I do this?</p>

CC BY-SA 4.0
2020-05-27T13:55:36.903Z
Hi ... this is definitely in MEGA. Could you check again? Try updating to MEGA X?
M__
CC BY-SA 4.0
2020-05-28T05:12:46.903Z
@Michael yes I tried. Export to xls and xlsx - crashed. Csv - fine, but only first 1000nt. Unfortunately I have about 40 sequences ~25kb length each. MEGA can't handle this amount of data.
Adamm
CC BY-SA 4.0
2020-06-26T19:31:51.427Z
okay, it must be done because it is very easy to code e.g. via AlignIO in Biopython ... you'll need to adapt it, but all you are doing is splicing through an alignment.
M__
<phylogenetics><sequence-analysis>
How to change sequence format in my alignment file?
# How to change sequence format in my alignment file?

(Asked by: username_0 on 2020-05-27)

I have fasta file with alingned several sequences (from MUSCLE), when I open it (e.g. notepad++) they look like:
[![enter image description here](https://i.sstatic.net/SHsd1.png)](https://i.sstatic.net/SHsd1.png)

And I want dot format of identities like [![enter image description here](https://i.sstatic.net/suH4J.png)](https://i.sstatic.net/suH4J.png) and then save it in txt file.

I failed using MEGA, BioEdit, Jalview and CodonCode, how can I do this?

**Tags:** phylogenetics, sequence-analysis
> **Comments:**
> **username_1**: Hi ... this is definitely in MEGA. Could you check again? Try updating to MEGA X?  
> **username_0**: @Michael yes I tried. Export to xls and xlsx - crashed. Csv - fine, but only first 1000nt. Unfortunately I have about 40 sequences ~25kb length each. MEGA can't handle this amount of data.  
> **username_1**: okay, it must be done because it is very easy to code e.g. via AlignIO in Biopython ... you'll need to adapt it, but all you are doing is splicing through an alignment.  

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## 0 answers

