Locus 4118

Sequence ID 3L_DroMel_CAF1
Location 12,017,089 – 12,017,205
Length 116
Max. P 0.767554
window6405

overview

Window 5

Location 12,017,089 – 12,017,205
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.07
Mean single sequence MFE -42.11
Consensus MFE -20.55
Energy contribution -21.80
Covariance contribution 1.25
Combinations/Pair 1.20
Mean z-score -2.18
Structure conservation index 0.49
SVM decision value 0.52
SVM RNA-class probability 0.767554
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12017089 116 + 23771897
CUUAAGGAGCGGGAACGCAAUGAGCGCAUGA----UGAAGGAUCAGCAGGCCAAGGAGAAGGAGCUGCAGGCGGCCAAGCAGCGCAAAAAAAAGGAUGAGGCAUUGGCCUCCUUGGUCAU
........(((....))).......((.(((----(.....)))))).(((((((((......((.....))((((((((..(((.........).))..)).))))))))))))))).. ( -39.70)
>DroPse_CAF1 34768 116 + 1
CGCCAGGAGCGGGAGCGGAACCAGCGGCAGC----UGAGGGAGCAGCAGCGCAGGGACGAAGAGGUGCGGACCUCCAGGCGGCGGCAGAAGCGGGAGGAGGCUCUCGCCUCCCUGGCCAU
.((((((.((((((((....((.(((.(.((----((......)))).))))..(.((......)).))).(((((..((..(....)..)).)))))..))))))))...))))))... ( -52.50)
>DroSim_CAF1 34403 116 + 1
CUCAAGGAGCGGGAACGCAAUGAGCGCAUGA----UGAAGGAUCAGCAGGCCAAGGAGAAGGAGCAGCAGGGCGCCAAGCAGCGCAAGAAAAAAGAUGAGGCAUUGGCCUCCUUGGUCAU
((((....(((....)))..)))).((.(((----(.....)))))).((((((((((.....((......))(((((((..(....)............)).))))))))))))))).. ( -40.44)
>DroEre_CAF1 36992 116 + 1
CUUAAAGAGCGGGAACGAAAUGAGCGCAUGA----UGAAGGAUCAGCGGGCCAAGGAGCAGGAGCUACAGGCGGCCAAGCAGCGUCAGAAAAAAGAUGAGGCACUGGCCUCCUUGGUCAU
((((.....((....))...))))(((.(((----(.....)))))))(((((((((......((.....))(((((.((..((((........))))..))..)))))))))))))).. ( -41.80)
>DroYak_CAF1 35313 116 + 1
CUCAAAGAGCGGGCACGUAAUGAGCGCAUGA----UGAAGGAUCAGCAGGCCAAGGAGAAGGAGCUGCAGGCCGCCAAGCAGCGCCAGAAAAAAGAUGAGGCACUGGCCUCCUUGGUCAU
((((....(((....)))..)))).((.(((----(.....)))))).((((((((((.....(((((.((...))..)))))(((((...............))))))))))))))).. ( -41.86)
>DroAna_CAF1 32317 116 + 1
CGCCAGGAGCGGGAUCGAAA----CGCAAAACAAUUAAAGGAUCAUCAGGAGAAGGAGAAGGAACUGAUGGCCUCUAAGCAGCGUCAGAGGAAAGAGGAGGCUCUCGCCUCUCUGGCCAU
.(((((((((((((......----..........(((.(((.(((((((...............)))))))))).)))((..(.((........)).)..))))))).))).)))))... ( -36.36)
>consensus
CUCAAGGAGCGGGAACGAAAUGAGCGCAUGA____UGAAGGAUCAGCAGGCCAAGGAGAAGGAGCUGCAGGCCGCCAAGCAGCGCCAGAAAAAAGAUGAGGCACUGGCCUCCUUGGUCAU
........(((.............))).....................(((((((((......(((((..........)))))................(((....)))))))))))).. (-20.55 = -21.80 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:54 2006