Locus 2178

Sequence ID 3L_DroMel_CAF1
Location 5,935,447 – 5,935,539
Length 92
Max. P 0.638012
window3378

overview

Window 8

Location 5,935,447 – 5,935,539
Length 92
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 80.33
Mean single sequence MFE -27.15
Consensus MFE -16.89
Energy contribution -18.00
Covariance contribution 1.11
Combinations/Pair 1.16
Mean z-score -1.66
Structure conservation index 0.62
SVM decision value 0.22
SVM RNA-class probability 0.638012
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5935447 92 - 23771897
GCUGA-------------------------CUGGCACUUUGUUUAUUGAAGUGCGCUAAACUUUUUAGUCGCCAUCACCUCG--GUCGUGGCUUGUUAAUAUCGAGCAGCGCAUUAUUU
((((.-------------------------((.((((((((.....))))))))(((((.....))))).(((((.((....--)).)))))............))))))......... ( -26.40)
>DroVir_CAF1 47352 88 - 1
GCCGG--------------------GUUGG--GGUACUUCGUUUAUUGAAGUGCGCUAAACUUUUC----GCCGGCAACA-----ACGUCGCUUGUUAAUAUUGAGACGCGCAUUAUUU
(((((--------------------.((((--.((((((((.....)))))))).)))).......----.)))))....-----.....((.((((........)))).))....... ( -26.90)
>DroSim_CAF1 30209 92 - 1
GCUGA-------------------------CUGGCACUUUGUUUAUUGAAGUGCGCUAAACUUUUUAGUCGCCAUCACCUCG--GUCGUGGCUUGUUAAUAUCGAGCAGCGCAUUAUUU
((((.-------------------------((.((((((((.....))))))))(((((.....))))).(((((.((....--)).)))))............))))))......... ( -26.40)
>DroEre_CAF1 27796 92 - 1
GCUGA-------------------------CUGGCACUUUGUUUAUUGAAGUGCGAUAAACUUUUUAGUCGCCAUCACCUCC--GUCGUGGCUUGUUAAUAUCGAGCAGCGCAUUAUUU
((((.-------------------------((.((((((((.....))))))))((((.(((....))).(((((.((....--)).))))).......)))).))))))......... ( -25.60)
>DroYak_CAF1 29416 94 - 1
GCUGA-------------------------CUGGCACUUUGUUUAUUGAAGUGCGCUAAACUUUUUAGUCGCCAUCACCACCGCGUCGUGGCUUGUUAAUAUCGAGCAGCGCAUUAUUU
((((.-------------------------((.((((((((.....))))))))(((((.....))))).(((((.((......)).)))))............))))))......... ( -24.60)
>DroAna_CAF1 57040 112 - 1
GCUGAAGGAGGUAAGGUGUGGGUGGUUC--CUAGCACUUUGUUUAUUGAAGUGCGCUAAACUUUUUAGUCGCCAUCACC-----GUCGACGCUUGUUAAUAUCGAGCAGAGCAUUAUUU
(((...(..((...((((..((((....--...((((((((.....))))))))(((((.....)))))))))..))))-----.))..)(((((.......)))))..)))....... ( -33.00)
>consensus
GCUGA_________________________CUGGCACUUUGUUUAUUGAAGUGCGCUAAACUUUUUAGUCGCCAUCACCUC___GUCGUGGCUUGUUAAUAUCGAGCAGCGCAUUAUUU
((((.............................((((((((.....))))))))................(((((.((......)).)))))..............))))......... (-16.89 = -18.00 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:09 2006