Locus 5339

Sequence ID 3L_DroMel_CAF1
Location 14,745,262 – 14,745,380
Length 118
Max. P 0.570146
window8439

overview

Window 9

Location 14,745,262 – 14,745,380
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.72
Mean single sequence MFE -25.85
Consensus MFE -18.99
Energy contribution -19.80
Covariance contribution 0.81
Combinations/Pair 1.05
Mean z-score -1.54
Structure conservation index 0.73
SVM decision value 0.07
SVM RNA-class probability 0.570146
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14745262 118 + 23771897
AAUUCAUUAUA--AUUGUAUUCAACAAAUUGACGUAAAACGGAAAUCAGGCCAUCAGACAAGAUGAAACGCGGAAUAGCGUAAGCUAAGAUUGGGAUCCAUCCCAAAACCCCGGAAUUAU
(((((......--.((((.....))))............(((......(((((((......))))..((((......))))..)))....((((((....))))))....)))))))).. ( -25.70)
>DroSec_CAF1 10293 120 + 1
AAUUCGUUAUUAUAUUGUAUUCAAUAAAUUGACGUAAAUCGAAAAUCAGGCCAUCAGACAAGUUGAAACGCGGAAUAGCGAAAGCUAAGGUUGGGACCCAUCCCAAAACCCCGGAAUUAU
(((((((((...(((((....)))))...)))).....................................(((..((((....)))).((((((((....)))))..))))))))))).. ( -27.00)
>DroSim_CAF1 9912 118 + 1
--UUCGUUAUUAUAUUCUAUUCAAUAAAUUGACGUAAAUCGAAAAUCAGGCCAUCAGACAAGAUGAAACGCGGAAUAGCGAAAGCUAAGGUUGGGACCCAUCCCAAAACCCCGGAAUUAU
--..(((((...((((......))))...)))))(((.((...........((((......)))).....(((..((((....)))).((((((((....)))))..)))))))).))). ( -25.60)
>DroEre_CAF1 10610 118 + 1
AGGUCGUUAUA--AAUAUAUUCCACUAAUUGACGUAAAGCGAAAAUCAGGCCAUCAGACAAGAUGAAACGCGGAAUAGCGAAAGCUAAGGUUGGGAACCAUCCUAAGCCCAGGGAAUUAU
...........--.....(((((.((......((.....)).......(((((((......))))......(((.((((....)))).(((.....))).)))...))).)))))))... ( -25.10)
>consensus
AAUUCGUUAUA__AUUGUAUUCAACAAAUUGACGUAAAUCGAAAAUCAGGCCAUCAGACAAGAUGAAACGCGGAAUAGCGAAAGCUAAGGUUGGGACCCAUCCCAAAACCCCGGAAUUAU
..................((((.............................((((......))))...((.((..((((....))))...((((((....))))))..)).))))))... (-18.99 = -19.80 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:42 2006