Locus 5383

Sequence ID 2L_DroMel_CAF1
Location 15,342,939 – 15,343,033
Length 94
Max. P 0.608161
window8542

overview

Window 2

Location 15,342,939 – 15,343,033
Length 94
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 79.34
Mean single sequence MFE -26.47
Consensus MFE -14.09
Energy contribution -14.07
Covariance contribution -0.03
Combinations/Pair 1.15
Mean z-score -1.94
Structure conservation index 0.53
SVM decision value 0.15
SVM RNA-class probability 0.608161
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15342939 94 + 22407834
CUUUCCGCUAAAUAUAAUAAAAACAAACCACAGAC---GAAGGAGUCC---------------GCGACUCCGAUUGAUGGACUUUAAGUCAAAGUCAAGUUGGAGUUCAAGU
......(((.......................(((---......))).---------------..(((((((((((((.(((.....)))...))).))))))))))..))) ( -20.20)
>DroVir_CAF1 104837 109 + 1
CUCUCUGCUAAAUAUAAUAAAAACAAACCGGGCAUAGUU-UGCGGUUGGCCACA-GGCCAACUCCACUUCCACUUGAUGGACUUU-AGUCAAAGUCAAGUUGGAGUUCAAGU
......(((....................(((((.....-)))((((((((...-))))))))))(((((.(((((((.(((...-.)))...))))))).)))))...))) ( -33.00)
>DroPse_CAF1 89655 112 + 1
CUCUCCGCUAAAUAUAAUAAAAACAAACCACAGACAGUCGACCAGUCGAGCAGUCGAGCAGCGGAGCCUCCAAUUGAUGGACUUUAAGUCAAAGUCAAGUUGGAGUUCAAGU
..(((((((............................((((....))))((......))))))))).(((((((((((.(((.....)))...))).))))))))....... ( -32.40)
>DroYak_CAF1 92326 97 + 1
CUUUCCGCUAAAUAUAAUAAAAACAAACCACAGACGGCGAAGGAGUCC---------------GCGACUCCGAUUGAUGGACUUUAAGUCAAAGUCAAGUUGCAGUUCAAGU
................................(((.((((.((((((.---------------..))))))..(((((.(((.....)))...))))).)))).)))..... ( -20.50)
>DroAna_CAF1 95697 99 + 1
CUUUCUGCUAAAUAUAAUAAAAACAAACCACAGACGAAGAAGGAGUCG-------GA------GCGACUCCGAUUGAUGGACUUUAAGUCAAAGUCAAGUUGGAGUUCAAGU
((((((...............................))))))(((((-------((------(...))))))))..((((((((((.(........).))))))))))... ( -20.88)
>DroPer_CAF1 90040 112 + 1
CUCUCCGCUAAAUAUAAUAAAAACAAACCACAGACAGUCGAGCAGUCGACCAGUCGAGCAGCGGAGCCUCCAAUUGAUGGACUUUAAGUCAAAGUCAAGUUGGAGUUCAAGU
..(((((((.......................(((.(((((....)))))..)))....))))))).(((((((((((.(((.....)))...))).))))))))....... ( -31.83)
>consensus
CUCUCCGCUAAAUAUAAUAAAAACAAACCACAGACAGUGAAGCAGUCG_______GA______GCGACUCCAAUUGAUGGACUUUAAGUCAAAGUCAAGUUGGAGUUCAAGU
......(((.......................(((.........)))....................(((((((((((.(((.....)))...))))).))))))....))) (-14.09 = -14.07 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:44 2006