Locus 188

Sequence ID 3L_DroMel_CAF1
Location 542,400 – 542,517
Length 117
Max. P 0.996282
window271

overview

Window 1

Location 542,400 – 542,517
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.88
Mean single sequence MFE -34.12
Consensus MFE -31.37
Energy contribution -31.07
Covariance contribution -0.30
Combinations/Pair 1.06
Mean z-score -2.16
Structure conservation index 0.92
SVM decision value 2.68
SVM RNA-class probability 0.996282
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 542400 117 + 23771897
CUCGACUUUAUGGCUGUUGCCUGAAAUGUAACACAUUUCGUGCGUUUUACGCGUUUG-CCUGGCGUAUGAGUAAUAUUUUGUGUUUUUAUUGCGUAUACGUCGUGUGGUCCCCUUUUC--
...((((.((((((...(((.(((((((((.(.......)))))))))).)))...)-)).((((((((.((((((...........)))))).))))))))))).))))........-- ( -33.00)
>DroSec_CAF1 16428 117 + 1
CUCGACUUUAUGGCUGUUGCCUGAAAUGAAACACAUUUCGUGCGUUUUACGCGUUUG-CCUGGCGUAUGAGUAAUAUUUUGUGUUUAUAUUGCGUAUACGUCGUGUGGUCCCCUCCUC--
...((((.((((((...(((.(((((((...(((.....)))))))))).)))...)-)).((((((((.(((((((.........))))))).))))))))))).))))........-- ( -33.50)
>DroSim_CAF1 17336 117 + 1
CUCGACUUUAUGGCUGUUGCCUGAAAUGAAACACAUUUCGUGCGUUUUACGCGUUUG-CCUGGCGUAUGAGUAAUAUUUUGUGUUUUUAUUGCGUAUACGUCGUGUGGUCCCCUCCUC--
...((((.((((((...(((.(((((((...(((.....)))))))))).)))...)-)).((((((((.((((((...........)))))).))))))))))).))))........-- ( -32.50)
>DroEre_CAF1 16823 116 + 1
CUCGACUUUAUGGCUGUUGCCUGAAAUGAAACACAUUUCGUGCGUUUUAUGCGUUUG-CCUGGCGUAUGAGUAAUAUUUUGUGUUUUUAUUGCGCAUACGUAGUGUGGUCCCUUGUU---
...((((.((((((...(((.(((((((...(((.....)))))))))).)))...)-))..(((((((.((((((...........)))))).))))))).))).)))).......--- ( -32.20)
>DroYak_CAF1 17038 117 + 1
CUCGACUUUAUGGCUGUUGCCUGAAAUGAAACACAUUUCGUGCGUUUUAUGCGUUCG-CCGGGCGUAUGAGUAAUAUUUUGUGCUUUUAUUGCGCAUACGUCGUGUGGUCCCUUGUUC--
...((((.((((((....(((((..(((((((.(((...))).)))))))((....)-))))))(((((.((((((...........)))))).))))))))))).))))........-- ( -35.80)
>DroAna_CAF1 22231 120 + 1
CUCGACUUUAUGGCCGUUGCCUGAAAUGAAACACAUUUCGUGCGUUUUAUGCGUCCAACACGGCGUAUGAGUAAUAUUUUGUGUUUUUAUUGCGUAUACGUCGUGUGGUCCGCUGUUCCU
...((((...(((.((((((.(((((((.....))))))).)))......))).)))((((((((((((.((((((...........)))))).)))))))))))))))).......... ( -37.70)
>consensus
CUCGACUUUAUGGCUGUUGCCUGAAAUGAAACACAUUUCGUGCGUUUUACGCGUUUG_CCUGGCGUAUGAGUAAUAUUUUGUGUUUUUAUUGCGUAUACGUCGUGUGGUCCCCUGUUC__
...((((.((((((....(((.((((((.....))))))..((((...)))).........)))(((((.((((((...........)))))).))))))))))).)))).......... (-31.37 = -31.07 +  -0.30) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:18 2006