Locus 578

Sequence ID 2R_DroMel_CAF1
Location 2,967,716 – 2,967,836
Length 120
Max. P 0.546106
window1055

overview

Window 5

Location 2,967,716 – 2,967,836
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.28
Mean single sequence MFE -41.34
Consensus MFE -28.99
Energy contribution -27.72
Covariance contribution -1.27
Combinations/Pair 1.43
Mean z-score -1.30
Structure conservation index 0.70
SVM decision value 0.02
SVM RNA-class probability 0.546106
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2967716 120 - 20766785
GCUGGCCGAGGAGAAGAAUGUUUUCAUUGCCGGCGAUGACUUCAAGUCCGGUCAGACCAAGAUCAAGAGCGUGUUGGUAGAUUUCCUGGUGGGAGCUGGUAUCAAGCCGGUGUCCAUUGC
.(((((((.((.((((.......((((((....))))))))))...)))))))))(((((.((.......)).))))).........(((((..((((((.....))))))..))))).. ( -38.71)
>DroVir_CAF1 9382 120 - 1
GCUGGCCGAGGAGAAGCAGGUCUUCAUUGCCGGCGAUGAUUUUAAGUCGGGCCAAACAAAGAUUAAAUCCGUUUUGGUUGACUUCUUGGUGGGAGCCGGCAUUAAGCCAGUCUCCAUUGU
((((((...(((((......)))))..(((((((..(.(((..(((((((.(((((....(((...)))...))))))))))))...))).)..)))))))....))))))......... ( -40.50)
>DroGri_CAF1 8647 120 - 1
GCUGGCGGAGGAGAAACAGAUCUUUAUUGCUGGCGACGACUUCAAGUCGGGACAGACAAAGAUCAAGUCGGUGCUGGUGGACUUUUUGGUGGGUGCCGGCAUUAAGCCCGUCUCCAUUGU
((..((((..((((......))))..))))..))((((((.....)))(((.(.(((.........)))((((((((((..(........)..))))))))))..)))))))........ ( -41.50)
>DroWil_CAF1 12366 120 - 1
UUUGGCUGAGGAGAAACAAGUCUUCAUUGCUGGCGAUGAUUUCAAAUCGGGUCAGACCAAGAUCAAGAGUGUUUUGGUUGAUUUUCUAGUGGGUGCUGGCAUUAAACCAGUUUCUAUUGC
.(..((((((((........))))))..))..)((((........))))((((((.(((((((.......)))))))))))))...(((((((.(((((.......))))).))))))). ( -31.80)
>DroMoj_CAF1 13280 120 - 1
GCUGGCCGAGGAGCAGCGCGUCUUUAUUGCCGGCGAUGAUUUCAAGUCGGGCCAGACAAAGAUUAAGUCCGUUUUGGUGGACUUUCUGGUGGGCGCGGGCAUCAAGCCCGUCUCCAUUGU
.(((((((((((((...)).))))).....((((..((....)).))))))))))....(((..(((((((......))))))))))((((((.((((((.....)))))).)))))).. ( -47.10)
>DroAna_CAF1 11401 120 - 1
GUUGGCCGAAGAGAAAAAGGUCUUCAUUGCCGGAGAUGACUUCAAGUCGGGCCAGACCAAGAUUAAGAGUGUCCUUGUGGACUUUUUGGUGGGCGCUGGCAUCAAGCCAGUGUCCAUUGC
.((((((............((((((......))))))(((.....))).))))))(((((((........((((....)))).)))))))((((((((((.....))))))))))..... ( -48.40)
>consensus
GCUGGCCGAGGAGAAACAGGUCUUCAUUGCCGGCGAUGACUUCAAGUCGGGCCAGACAAAGAUCAAGACCGUUUUGGUGGACUUUCUGGUGGGAGCUGGCAUCAAGCCAGUCUCCAUUGC
((((((.(((((........)))))...)))))).........(((((..(((((((.............)).))))).)))))...((((((.((((((.....)))))).)))))).. (-28.99 = -27.72 +  -1.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:03 2006