[Jalview-discuss] a small bug in ClustalX colouring scheeme

[Rein Aasland]

Dear Jalview team,

May I suggest that there is a small bug in the Clustalx colouring  
scheeme, - and, if I'm not wrong, it comes from the original Clustalx  
team (as I know it was there when they made it, - and I corrected my  
own coding scheeme for my running version). Anyway, - it is as follows:

In columns with conserved (major) Asp (D), Glu's doesn't get coloured  
(which they should; negatives!).   The reverse situation is ok (i.e.  
D's in columns with conserved/major E's DO get coloured.

I include a snapshot from my alignment at hand, - but you really don't  
need any sample, as any D/E-rich alignment with reveal this.

Cheers

Rein






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Rein Aasland, professor                  !  Tlf.: +47 555 845 31 (lab)
Department of Molecular Biology &        !        +47 924 25 456 (mobil)
Computational Biology Unit, BCCS         !  Fax.: +47 555 896 83
University of Bergen                     !  E-mail: aasland at mbi.uib.no
Thormoehlensgt 55                        !  WWW:  http://www.uib.no/rg/genreg
N-5020 Bergen, Norway                    !  WWW:  http://www.cbu.uib.no/
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p.t. on sabbatical leave to NIMR/MRC, Mill Hill, London
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