How to modify the result rank of Multiple sequence alignment

Question

[Nelo]

Hi

I don't know whether I am asking a valid question or not but still asking

I have a protein fasta file in which it contains suppose 10 sequences of E.coli's Efflux pump and 1 sequence of pseudomonas. And in raw fasta file I have kept Pseudomonas sequence at top and then rest, like

Pseudomonas MAWQRTYV... E.coli1 MAVRTYS... E.coli2 MNTREVP.... E.coli3 MKLRTYWQ...

Now I want the output of Multiple sequence alignment in which I want pseudomonas at top instead of coming in between the sequences Is that possible ?

[Nelo]

Okie....i got it Just have to go to additional parameter and change the ORDER accordingly to our wish whether I have to keep the output in ALIGNED or INPUT ORDER.