Locus 834

Sequence ID 2R_DroMel_CAF1
Location 3,922,433 – 3,922,547
Length 114
Max. P 0.859938
window1454

overview

Window 4

Location 3,922,433 – 3,922,547
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.89
Mean single sequence MFE -34.42
Consensus MFE -25.54
Energy contribution -25.90
Covariance contribution 0.36
Combinations/Pair 1.09
Mean z-score -2.28
Structure conservation index 0.74
SVM decision value 0.82
SVM RNA-class probability 0.859938
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3922433 114 + 20766785
AGUCAAGGUGGAAGCCAAUGAAAUACACAUGUGGUUAAUUACGGCCGAAGGAACUGGCUCGUAUCCUGCUGGCAUAAUUAAUUAAAAAUGGAAUCUCGUUGGCCU-----UCA-UUCUUC
....((((((((.((((((((.((.(.(((.((((((((((..((((.((((((......)).))))..)))).))))))))))...)))).)).)))))))).)-----)))-.)))). ( -35.80)
>DroSec_CAF1 6720 114 + 1
AGUCAAGGUGGAAGCCAAUGAAAUACACAUGUGGUUAAUUACGGCCGAAGGAACUGGCUCGUAUCCUGCUGGCAUAAUUAAUUAAAAAUGGAAUCUCGUUGGCCU-----UCA-UUCUUC
....((((((((.((((((((.((.(.(((.((((((((((..((((.((((((......)).))))..)))).))))))))))...)))).)).)))))))).)-----)))-.)))). ( -35.80)
>DroSim_CAF1 8172 114 + 1
AGUCAAGGUGGAAGCCAAUGAAAUACACAUGUGGUUAAUUACGGCCGAAGGAACUGGCUCGUAUCCUGCUGGCAUAAUUAAUUAAAAAUGGAAUCUCGUUGGCCU-----UCA-UUCUUC
....((((((((.((((((((.((.(.(((.((((((((((..((((.((((((......)).))))..)))).))))))))))...)))).)).)))))))).)-----)))-.)))). ( -35.80)
>DroEre_CAF1 6407 108 + 1
AGUCAAGGUGGAAGCCAAUGGAAUACGCAUGUGGUAAAUUACGGCCGAAGGAGCUGG-----AUCCUGCUGGCAUAAUUAAUUAAAAAUGGAAUCUCGUUGUCCU-----CCA--GCUUG
...((((.((((.(.(((((..((.(.(((.((((.(((((..((((.((((.....-----.))))..)))).))))).))))...)))).))..))))).).)-----)))--.)))) ( -32.70)
>DroYak_CAF1 6978 120 + 1
AGUCAAGGUGGAAGCCAAUGGAAUACACAUGUGGUUAAUUACGGCCGAAGGAGCUGGCUCGCAUCCUGCAGGCAUAAUUAAUUAAAAAUGGAAUCUCGUUGCUCUUUUUUCCCGUUCUUG
...(((((.((((((.((((..((.(.(((.((((((((((..(((..((((((......)).))))...))).))))))))))...)))).))..)))))))......)))...))))) ( -32.00)
>consensus
AGUCAAGGUGGAAGCCAAUGAAAUACACAUGUGGUUAAUUACGGCCGAAGGAACUGGCUCGUAUCCUGCUGGCAUAAUUAAUUAAAAAUGGAAUCUCGUUGGCCU_____UCA_UUCUUC
.............((((((((.((.(.(((.((((((((((..(((..((((((......)).))))...))).))))))))))...)))).)).))))))))................. (-25.54 = -25.90 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:33 2006