Locus 1501

Sequence ID 3L_DroMel_CAF1
Location 4,334,492 – 4,334,612
Length 120
Max. P 0.770503
window2336

overview

Window 6

Location 4,334,492 – 4,334,612
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.42
Mean single sequence MFE -28.36
Consensus MFE -19.96
Energy contribution -20.04
Covariance contribution 0.08
Combinations/Pair 1.17
Mean z-score -2.03
Structure conservation index 0.70
SVM decision value 0.53
SVM RNA-class probability 0.770503
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4334492 120 + 23771897
CACUGGCUGGCAGUCAAUGUUAACGUAAACAUUAUUGCGGCUAUCAACUCGCAUUUGUUUAUAAUAAAUGCGCUCAAGUCUUAUAAAAAUAAACUAGCGCUACCGAUUGCAUUCCCGUUG
.((.((...((((((.........(((((((....(((((........)))))..))))))).......(((((..(((.((((....))))))))))))....))))))...)).)).. ( -30.00)
>DroSec_CAF1 21032 120 + 1
CACUGACUGGCAGUCAAUGUUAACGUAAACAUUAUUGCGGCUAUCUACUCGCUUUUGUUUAUAAUAAAUGCGCUCAAGUCUUAUAAAAAUAAACUAGCGCUACCGAUUGCAUUCCGAUUG
.........((((((.........(((((((.....((((........))))...))))))).......(((((..(((.((((....))))))))))))....)))))).......... ( -25.90)
>DroSim_CAF1 20820 120 + 1
CACUGACUGGCAGUCAAUGUUAACGUAAACAUUAUUGCGGCUAUCAACUCGCUUUUGUUUAUAAUAAAUGCGCUCAAGUCUUAUAAAAAUAAACUAGCGCUACCGAUUGCAUUCCGAUUG
.........((((((.........(((((((.....((((........))))...))))))).......(((((..(((.((((....))))))))))))....)))))).......... ( -25.90)
>DroYak_CAF1 20156 120 + 1
CACUGACUGGCAGUCAAUGUUAACGUAAACAUUAUUGCGGCUAUCAACUCGCUUUUGUUUAUAAUAAAUGCGCUCAAGUCUUAUAAAAAUAAACUAGAGCUACCGAUUGCAUUCCCAUUG
.........((((((.........(((((((.....((((........))))...))))))).........((((.(((.((((....))))))).))))....)))))).......... ( -25.50)
>DroAna_CAF1 20840 113 + 1
UGCAGA----CAGUCAAUGUUAGCAUAAACACCAUCCCGGCCGUCAGAUCGACAGUGUUUAUAAUAAAUGCGGCCGGGUCUUAUAAAAAUAAACUGUCAGAAGCAACUGCAUUGCCG---
.(((((----((((...((((......))))....((((((((((.....))).(((((((...))))))))))))))..............))))))....((....))..)))..--- ( -34.50)
>consensus
CACUGACUGGCAGUCAAUGUUAACGUAAACAUUAUUGCGGCUAUCAACUCGCUUUUGUUUAUAAUAAAUGCGCUCAAGUCUUAUAAAAAUAAACUAGCGCUACCGAUUGCAUUCCCAUUG
.........((((((.........(((((((.....((((........))))...))))))).......(((((..(((.((((....))))))))))))....)))))).......... (-19.96 = -20.04 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:17 2006