Locus 4301

Sequence ID 3L_DroMel_CAF1
Location 12,616,878 – 12,616,982
Length 104
Max. P 0.672001
window6655

overview

Window 5

Location 12,616,878 – 12,616,982
Length 104
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 89.98
Mean single sequence MFE -30.60
Consensus MFE -22.74
Energy contribution -24.14
Covariance contribution 1.40
Combinations/Pair 1.06
Mean z-score -1.80
Structure conservation index 0.74
SVM decision value 0.29
SVM RNA-class probability 0.672001
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12616878 104 - 23771897
GGAAACGAGAGGAUAAGACAUCGAAGGACGCAGCAGGAGUUCGCUAAUUAACUAAUUGGCAAGUCGUUAACUUCUGAGCUAAACGGAUUUUCCCUCAAGCAACG----
(....)(((.(((.((..(.((....)).((..((((((((.(((((((....)))))))........)))))))).)).....)..)).))))))........---- ( -25.50)
>DroSec_CAF1 104829 104 - 1
GGAAACGAGAGGAUAAGACAUCGAAGGACGCAGCAGGAGUUCGCUAAUUAACUAAUUGGCAAGUCGUUAACUUCUGAGCUAAAGGGAUUUUCCCUCAAGCAAAG----
(....).(((((.((((((......((((.(.....).))))(((((((....)))))))..))).))).)))))..(((..((((.....))))..)))....---- ( -30.00)
>DroSim_CAF1 107744 103 - 1
GGAAACGAGAGGAUAAGACAUCGAAGGACGCAGCAGGAGUUCGCUAAUUAACUAAUUGGCAAGUCGUUAACUUCUGAGCCAAAGGGAUU-UCCCUCAAGCAAAG----
(....).(((((.((((((......((((.(.....).))))(((((((....)))))))..))).))).)))))..((...((((...-.))))...))....---- ( -27.50)
>DroEre_CAF1 107677 108 - 1
GGAAACGAGAGGAUAAGACGUCGAAGGACGCAGCAGGAGCUCGCUAAUUAACUAAUUGGCAAGUCGUUAACUUCUGAGCUAAGGGGAUUUUGCCUCUGGCAAAGUCUU
(....).(((((.(((((((((....)))(.(((....))))(((((((....)))))))..))).))).)))))........(((((((((((...))))))))))) ( -35.40)
>DroYak_CAF1 109777 108 - 1
GGAAGCGAGAGGAUAAGACGUCGAAGGACGCCGCAGGAGUUCGCUAAUUAACUAAUUGGCAAGUCGUUAACUUCUGAGCUAAAGGGAUUUUCCCGCUUCGUUGUUCCU
.((((((.((((((....((((....))))((.....((((((((((((....)))))))((((.....))))..)))))...)).)))))).))))))......... ( -34.60)
>consensus
GGAAACGAGAGGAUAAGACAUCGAAGGACGCAGCAGGAGUUCGCUAAUUAACUAAUUGGCAAGUCGUUAACUUCUGAGCUAAAGGGAUUUUCCCUCAAGCAAAG____
(....).(((((.((((((......((((.(.....).))))(((((((....)))))))..))).))).)))))..(((..((((.....))))..)))........ (-22.74 = -24.14 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:01 2006