[BiO BB] aligning character data other than DNA or protein

[Daniel Lang]

Hi,
Are you sure, wether it is really Clustal that restricts to 24 chars or
simply the underlying substitutiion matrix. If this is the case, this
could be accomplished by writing your own matrix.
Or you try other tools in combination with adapted substitution matrix...
Daniel

Corné HW Klaassen wrote:
> Iain
> 
> Clustal only accepts 24 letters. Numbers and other characters are
> disregarded. So what if I have more than 24 different characters?
> 
> Corné
> 
> -----------------------------------------------------------------------------------------
> 
> dr. Corné H.W. Klaassen, Molecular Biologist
> Canisius Wilhelmina Hospital, Molecular Biology Unit, C60-C70
> Weg door Jonkerbos 100, 6532 SZ Nijmegen, The Netherlands.
> 
> tel: #31-24-3658670 (office)
> tel: #31-24-3658677 (direct)
> fax: #31-24-3658671
> E-Mail: c.klaassen at cwz.nl
> 
> 
> 
> Iain Wallace wrote:
> 
>> Hi,
>>
>> I think ClustalW can do that, as long as it is in a sequence format.
>>
>> Iain
>> On 8/31/05, Corné HW Klaassen <c.klaassen at cwz.nl> wrote:
>>  
>>
>>> Hi all,
>>>
>>> Does anybody know of a convenient tool to align stretches of character
>>> data other than DNA or protein (i.e. numbers: 01-02-03-05 and
>>> 01-02-04-05) that is also able to deal with insertions and deletions
>>> etc.?
>>>
>>> Thanks,
>>>
>>> Corné
>>>
>>> -- 
>>> -----------------------------------------------------------------------------------------
>>>
>>> dr. Corné H.W. Klaassen, Molecular Biologist
>>> Canisius Wilhelmina Hospital, Molecular Biology Unit, C60-C70
>>> Weg door Jonkerbos 100, 6532 SZ Nijmegen, The Netherlands.
>>>
>>> tel: #31-24-3658670 (office)
>>> tel: #31-24-3658677 (direct)
>>> fax: #31-24-3658671
>>> E-Mail: c.klaassen at cwz.nl
>>>
>>> _______________________________________________
>>> Bioinformatics.Org general forum  - 
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>>>
>>>   
>>
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>>  
>>
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-- 

Daniel Lang
University of Freiburg, Plant Biotechnology
Schaenzlestr. 1, D-79104 Freiburg
fax: +49 761 203 6945
phone: +49 761 203 6974
homepage:  http://www.plant-biotech.net/
e-mail: daniel.lang at biologie.uni-freiburg.de

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