Locus 2334

Sequence ID X_DroMel_CAF1
Location 6,263,196 – 6,263,305
Length 109
Max. P 0.959003
window3788

overview

Window 8

Location 6,263,196 – 6,263,305
Length 109
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.45
Mean single sequence MFE -26.98
Consensus MFE -26.75
Energy contribution -27.00
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.99
SVM decision value 1.50
SVM RNA-class probability 0.959003
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6263196 109 - 22224390
GACUUGGCCAUUUAAGUGCGUGUUUUGAAUGCAUUUUGCAAAGAAAGUGAACCGAACAACGGA-----AAAUAAAUCAAGGUAUUCAGAGCAGGCGCAGUCAUACAAACACACU------
((((...........((((.((((((((((((..((..(.......)..))(((.....))).-----............)))))))))))).)))))))).............------ ( -28.80)
>DroSec_CAF1 4893 109 - 1
GACUUGGCCAUUUAAGUGCGUGUUUUGAAUGCAUCUUGCAAAGAAAGUGAACCGAACAACGGA-----AAAUAAAUCAAGGUAUUCAGAGCAGGCGCAGUCAUACAAACACACU------
((((...........((((.((((((((((((...(..(.......)..).(((.....))).-----............)))))))))))).)))))))).............------ ( -28.10)
>DroSim_CAF1 4834 109 - 1
GACUUGGCCAUUUAAGUGCGUGUUUUGAAUGCAUCUUGCAAAGAAAGUGAACCGAACAACGGA-----AAAUAAAUCAAGGUAUUCAGAGCAGGCGCAGUCAUACAAACACACU------
((((...........((((.((((((((((((...(..(.......)..).(((.....))).-----............)))))))))))).)))))))).............------ ( -28.10)
>DroYak_CAF1 4364 120 - 1
GACUUGGCCAUUUAAGUGCGUGUUUUCAAUGCAUCUUGCAAAGAAAGUGAACCGAAAAACGGAAACGAAAAUAAAUCAAGGUAUUCAGAGCAGGCGCAGUCAUACAAACACACACCACAC
((((...........((((.((((((.(((((..((((........(....).......((....)).........))))))))).)))))).))))))))................... ( -22.90)
>consensus
GACUUGGCCAUUUAAGUGCGUGUUUUGAAUGCAUCUUGCAAAGAAAGUGAACCGAACAACGGA_____AAAUAAAUCAAGGUAUUCAGAGCAGGCGCAGUCAUACAAACACACU______
((((...........((((.((((((((((((...(..(.......)..).(((.....)))..................)))))))))))).))))))))................... (-26.75 = -27.00 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:54 2006