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EvC Forum ⇒ Science Forums ⇒ Biological Evolution ⇒

Sequence comparisons (Bioinformatics?)

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Author Topic:   Sequence comparisons (Bioinformatics?)
mark24
Member (Idle past 5217 days)
Posts: 3857
From: UK
Joined: 12-01-2001

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Message 29 of 42 (216381)
06-12-2005 9:40 AM 		Reply to: Message 28 by Wounded King
06-12-2005 9:06 AM

Re: XP compatible version of ClustalX
WK,
​
Yep, thank seems to run, I'll take a look later.
​
Thanks again,
​
Mark
​
There are 10 kinds of people in this world; those that understand binary, & those that don't
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 Message 28 by Wounded King, posted 06-12-2005 9:06 AM Wounded King has not replied
  
mark24
Member (Idle past 5217 days)
Posts: 3857
From: UK
Joined: 12-01-2001

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Message 31 of 42 (216456)
06-12-2005 3:58 PM 		Reply to: Message 27 by randman
06-11-2005 5:24 PM

Re: here's one with CytoB
randman,
​
74 and 76 are nearly identical in some respects.
​
It's the type & location of differences that are informative in deriving trees, not the just the percentile number of differences.
​
Mark
​
There are 10 kinds of people in this world; those that understand binary, & those that don't
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 Message 33 by NosyNed, posted 06-12-2005 5:03 PM mark24 has replied
  
mark24
Member (Idle past 5217 days)
Posts: 3857
From: UK
Joined: 12-01-2001

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Message 32 of 42 (216459)
06-12-2005 4:00 PM 		Reply to: Message 28 by Wounded King
06-12-2005 9:06 AM

Re: XP compatible version of ClustalX
Hi WK,
​
I'm having a problen generating a sequence file to load into clustalX. How do you manage it?
​
Mark
​
There are 10 kinds of people in this world; those that understand binary, & those that don't
This message is a reply to:
 Message 28 by Wounded King, posted 06-12-2005 9:06 AM Wounded King has replied
Replies to this message:
 Message 34 by Wounded King, posted 06-13-2005 2:33 AM mark24 has replied
  
mark24
Member (Idle past 5217 days)
Posts: 3857
From: UK
Joined: 12-01-2001

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Message 35 of 42 (216523)
06-13-2005 3:27 AM 		Reply to: Message 34 by Wounded King
06-13-2005 2:33 AM

Re: Input format for ClustalX
WK,
​
Got it, I don't think it would upload because I had 2 line breaks between the label & sequence. Thanks.
​
Mark
​
There are 10 kinds of people in this world; those that understand binary, & those that don't
This message is a reply to:
 Message 34 by Wounded King, posted 06-13-2005 2:33 AM Wounded King has not replied
  
mark24
Member (Idle past 5217 days)
Posts: 3857
From: UK
Joined: 12-01-2001

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Message 36 of 42 (216525)
06-13-2005 3:44 AM 		Reply to: Message 33 by NosyNed
06-12-2005 5:03 PM

Re: Other than percentages??
Ned,
​
>1
aaaaaaaaa
>2
ttttttttt
>3
aaaaaaatt
>4
tttttttaa
>5
ataaatatt
​
In the above example, we should see 1&3 group together, & 2&4 due to shared similarities. Omit sequence 5 & try it.
​
With sequence 5 added, you may note that it is overall more similar at any given loci to 1&3 as comparted to 2&4, & so should appear as a sister group to 1&3 rather than 2&4.
​
Hope that helps.
​
Mark
​
There are 10 kinds of people in this world; those that understand binary, & those that don't
This message is a reply to:
 Message 33 by NosyNed, posted 06-12-2005 5:03 PM NosyNed has not replied
  
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