Locus 912

Sequence ID	3L_DroMel_CAF1
Location	2,772,100 – 2,772,205
Length	105
Max. P	0.987939

overview

Window 3

Location	2,772,100 – 2,772,205
Length	105
Sequences	4
Columns	105
Reading direction	forward
Mean pairwise identity	96.03
Mean single sequence MFE	-53.33
Consensus MFE	-50.40
Energy contribution	-51.65
Covariance contribution	1.25
Combinations/Pair	1.00
Mean z-score	-1.89
Structure conservation index	0.95
SVM decision value	0.93
SVM RNA-class probability	0.883590
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2772100 105 + 23771897
GGCAGCUGCUGAUGCGGAGUGGGCAGCGGCGGCGGUGCUGCGGUGCCAGUGGGCGUGCCCGGCGGUGGAUGGAUGAGCCCACUGCCAGGCGGUGGAGGCAGAUGC
.(((.(((((..(((.(...(((((.((.(.((((..(....)..)).)).).)))))))((((((((..........))))))))...).)))..))))).))) ( -51.90)
>DroSec_CAF1 17258 105 + 1
GGCAGCUGCUGAUGCGGAGUGGGCAGCGGCGGCGGUGCUGCGGUGCCAGUGGGCGUGCCCGGCGGUGGGUGGAUGAGCCCACUGCCAGGCGGAGGAGGCAGAUGC
.(((.(((((..(((.....(((((.((.(.((((..(....)..)).)).).)))))))((((((((((......))))))))))..))).....))))).))) ( -57.30)
>DroSim_CAF1 7849 105 + 1
GGCAGCUGCUGAUGCGGAGUGGGCAGCGGCGGCGGUGCUGCGGUGCCAGUGGGCGUGCCCGGCGGUGGGUGGAUGAGCCCACUGCCAGGCGGAGGAGGCAGAUGC
.(((.(((((..(((.....(((((.((.(.((((..(....)..)).)).).)))))))((((((((((......))))))))))..))).....))))).))) ( -57.30)
>DroYak_CAF1 16690 102 + 1
UGCAGCUGCUGAUGCGGAGUGGGC---GGCGGCGGUGCUGCGGUGCCAGUGGGCGUGCCCGGCGGCGGAUGGAUAAGCCCACUGCCAGGCGGAGGAGGCAGAUGC
.(((.(((((..((((((((((((---.(((((...)))))..((((..((((....))))..)))).........))))))).))..))).....))))).))) ( -46.80)
>consensus
GGCAGCUGCUGAUGCGGAGUGGGCAGCGGCGGCGGUGCUGCGGUGCCAGUGGGCGUGCCCGGCGGUGGAUGGAUGAGCCCACUGCCAGGCGGAGGAGGCAGAUGC
.(((.(((((..(((.....(((((.((.(.((((..(....)..)).)).).)))))))((((((((((......))))))))))..))).....))))).))) (-50.40 = -51.65 +   1.25)

alignment

secondary structure

dotplot

Window 4

Location	2,772,100 – 2,772,205
Length	105
Sequences	4
Columns	105
Reading direction	reverse
Mean pairwise identity	96.03
Mean single sequence MFE	-42.62
Consensus MFE	-41.31
Energy contribution	-41.38
Covariance contribution	0.06
Combinations/Pair	1.07
Mean z-score	-2.67
Structure conservation index	0.97
SVM decision value	2.10
SVM RNA-class probability	0.987939
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2772100 105 - 23771897
GCAUCUGCCUCCACCGCCUGGCAGUGGGCUCAUCCAUCCACCGCCGGGCACGCCCACUGGCACCGCAGCACCGCCGCCGCUGCCCACUCCGCAUCAGCAGCUGCC
(((.((((.......(((((((.(((((........))))).)))))))..(((....)))...(((((.........))))).............)))).))). ( -42.00)
>DroSec_CAF1 17258 105 - 1
GCAUCUGCCUCCUCCGCCUGGCAGUGGGCUCAUCCACCCACCGCCGGGCACGCCCACUGGCACCGCAGCACCGCCGCCGCUGCCCACUCCGCAUCAGCAGCUGCC
(((.((((.......(((((((.(((((........))))).)))))))..(((....)))...(((((.........))))).............)))).))). ( -44.80)
>DroSim_CAF1 7849 105 - 1
GCAUCUGCCUCCUCCGCCUGGCAGUGGGCUCAUCCACCCACCGCCGGGCACGCCCACUGGCACCGCAGCACCGCCGCCGCUGCCCACUCCGCAUCAGCAGCUGCC
(((.((((.......(((((((.(((((........))))).)))))))..(((....)))...(((((.........))))).............)))).))). ( -44.80)
>DroYak_CAF1 16690 102 - 1
GCAUCUGCCUCCUCCGCCUGGCAGUGGGCUUAUCCAUCCGCCGCCGGGCACGCCCACUGGCACCGCAGCACCGCCGCC---GCCCACUCCGCAUCAGCAGCUGCA
(((.((((.......(((((((.(((((........))))).)))))))..(((....)))...((.((......)).---)).............)))).))). ( -38.90)
>consensus
GCAUCUGCCUCCUCCGCCUGGCAGUGGGCUCAUCCACCCACCGCCGGGCACGCCCACUGGCACCGCAGCACCGCCGCCGCUGCCCACUCCGCAUCAGCAGCUGCC
(((.((((.......(((((((.(((((........))))).)))))))..((.....(((((.((.((...)).)).).))))......))....)))).))). (-41.31 = -41.38 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:15 2006