Locus 5314

Sequence ID 2R_DroMel_CAF1
Location 17,239,536 – 17,239,648
Length 112
Max. P 0.767032
window8489

overview

Window 9

Location 17,239,536 – 17,239,648
Length 112
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 93.51
Mean single sequence MFE -30.66
Consensus MFE -24.96
Energy contribution -24.76
Covariance contribution -0.20
Combinations/Pair 1.06
Mean z-score -1.59
Structure conservation index 0.81
SVM decision value 0.52
SVM RNA-class probability 0.767032
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17239536 112 + 20766785
GAAAUGUUUAUGACAAAGGUGUUUUGCUCUUGGGUAUAAUGGUUCCGUUUCGGUACUCAAAAGGUUCAGGAAGUGCUUAGUACGGAACGAGGAUUU-----AGUUAAGGGCUUAAUC
((((..(((.......)))..))))((((((((.((...(.(((((((...(((((((...........).))))))....))))))).).....)-----).))))))))...... ( -26.90)
>DroSec_CAF1 39118 112 + 1
GAAAUGUUUAUGACAAAGGUGUUAUGCUCUUGGCUAUAAUGGUUCCGUUUCGGGACUCAAAAGGUCCAGGAAGUGCUUAGUACGGAACGAGGAUUU-----AGUUAAGGGUUUAAUC
.........((((((....))))))(((((((((((...(.(((((.((((.(((((.....))))).))))((((...))))))))).).....)-----))))))))))...... ( -33.70)
>DroSim_CAF1 42220 112 + 1
GAAAUGUUUAUGACAAAGGUGUUAUGCUCUUGGGUCUAAUGGUUCCGUUUCGGGACUCAAAAGGUCCAGGAAGUGCUUAGUACGGAACGAGGAUUU-----AGUUAAGGGUUUAAUC
.........((((((....))))))((((((((((((..(.(((((.((((.(((((.....))))).))))((((...))))))))).)))))..-----..))))))))...... ( -28.20)
>DroEre_CAF1 41348 112 + 1
GAAAUGUUUAUGACAUAGGUGUUUUGCUCUUGGGGAUAAUGGUUCCGUUUCGGGACUCAAAAGGUCCAGGAAGUGCUUAGUACGGAACGAGGAUUU-----AGUUAAGGGCUUAAUC
((((..(((((...)))))..))))(((((((.((((..(.(((((.((((.(((((.....))))).))))((((...))))))))).)..))))-----...)))))))...... ( -31.80)
>DroYak_CAF1 40415 117 + 1
GAAAUGUUUAUGACAAAGGUGUUUUGCUCUUGGGGAUAGUGGUUCCGUUUCGGGACUUGAAAAGUCCAGGAAGUGCUUAGUACGGAACGAGGAUUUACUAUAGUUAAGGGUUUAAUC
....................(((..((((((((..((((((((((((((((.(((((.....))))).....((((...)))))))))).))).)))))))..))))))))..))). ( -32.70)
>consensus
GAAAUGUUUAUGACAAAGGUGUUUUGCUCUUGGGUAUAAUGGUUCCGUUUCGGGACUCAAAAGGUCCAGGAAGUGCUUAGUACGGAACGAGGAUUU_____AGUUAAGGGUUUAAUC
....................(((..((((((((.......(((((((((((.(((((.....))))).....((((...)))))))))).)))))........))))))))..))). (-24.96 = -24.76 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:51 2006