In article <73dq12$nc2$2 at saphir.jouy.inra.fr>, lindenb at jouy.inra.fr
(Pierre Lindenbaum) wrote:
> hello world,
>> does anyone knows about the file *.connect created by the 'foldrna' program ?
> what do exactly represent the six columns ?
>> thank you for your help :-)
>> Pierre L.
>> (...)
> FOLDRNA of: _seq0.seq Check: 1763 from: 1 to: 100 October 9, 1998 14:47
>>> Length: 100 Energy: -28.2
> ..
> 1 G 0 2 14 1
> 2 G 1 3 13 2
> 3 C 2 4 12 3
> 4 U 3 5 11 4
> 5 U 4 6 0 5
> 6 U 5 7 0 6
> 7 U 6 8 0 7
> 8 A 7 9 0 8
> 9 A 8 10 0 9
> 10 A 9 11 0 10
> 11 A 10 12 4 11
> 12 G 11 13 3 12
> (...)
I'll give this a try, although it's been a while.
column
1 nucleotide number in model (i)
2 nucleotide
3 nucleotide number of the i-1th nucleotide (5' of i)
4 nucleotide number of the 1+1th nucleotide (3' of i)
5 nucleotide base-paired with nucleotide i
6 nucleotide number label (does not have to equal i)
Close enough?
--
Jerry Learn <Learn at u.washington.edu>
U. of Washington
Seattle, WA 98195-7740 USA
