Locus 1212

Sequence ID 2R_DroMel_CAF1
Location 4,815,052 – 4,815,146
Length 94
Max. P 0.922181
window2111

overview

Window 1

Location 4,815,052 – 4,815,146
Length 94
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 77.21
Mean single sequence MFE -24.95
Consensus MFE -11.47
Energy contribution -12.93
Covariance contribution 1.46
Combinations/Pair 1.13
Mean z-score -2.48
Structure conservation index 0.46
SVM decision value 1.15
SVM RNA-class probability 0.922181
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4815052 94 + 20766785
GCAAUCAGUAACAAUCGGUAACA-----GCUA-GGCUAGAGCUAAUCACAUGAGGCAACCAGCCGAUGGCGGUACCGAGAACAAACAGUUUACUUAUUGC
(((((.(((.....((((((...-----((((-(((....)))..........(((.....)))..))))..))))))((((.....))))))).))))) ( -27.20)
>DroSec_CAF1 5969 94 + 1
GCAAUCAGUAACAAUCGGUAACG-----GCUA-GGCUAGAGCUAAUCACAUGGGGCAACCAGCCGAUGGCGGUACCGAGAACAAACAGUUUACUUAUUGC
(((((.(((.....((((((.(.-----((((-((((.((.....)).....((....))))))..)))).)))))))((((.....))))))).))))) ( -30.70)
>DroSim_CAF1 7121 94 + 1
GCAAUCAGUAACAAUCGGUAACG-----GCUA-GGCUAGAGCUAAUCUCAUGGGGCAACCAGCCGAUGGCGGUACCGAGAACAAACAGUUUACUUAUUGC
(((((.(((.....((((((.(.-----((((-((((.(((.....)))...((....))))))..)))).)))))))((((.....))))))).))))) ( -32.20)
>DroEre_CAF1 6018 89 + 1
GCAAUCAGUAACAAUCGCUAACA-----G------CUAAAGCUAAUCACAUGGGCGAACCAGCCGAUGGCGGUACCGAAAACAAACAGUUUACUUAUUGC
(((((.(((....(((((....(-----(------(....))).....(((.(((......))).)))))))).....((((.....))))))).))))) ( -23.70)
>DroYak_CAF1 7270 89 + 1
GCAAUCAGUGACAAUCGGUAAAA-----G------CUAAAGCUAAUCACAUGGGGGAACCAGCCGAUGGCGGUACCGAAAACAAACAGUUUACUUAUUGC
(((((.(((.....((((((...-----(------(((..(((...(....)((....)))))...))))..))))))((((.....))))))).))))) ( -23.50)
>DroPer_CAF1 7628 82 + 1
GCAAUCAGCUACAAUCAGUAACGUAACAGUAACAGUUAAAGCUAAGGCC-----CUAAUCAU----------CACACAAAACAAAAAGUCAGCUGAA---
....((((((((.....((.((......)).)).((((..((....)).-----.))))...----------...............)).)))))).--- ( -12.40)
>consensus
GCAAUCAGUAACAAUCGGUAACA_____GCUA_GGCUAAAGCUAAUCACAUGGGGCAACCAGCCGAUGGCGGUACCGAAAACAAACAGUUUACUUAUUGC
(((((.((((....(((((.................................((....)).((((....))))))))).(((.....))))))).))))) (-11.47 = -12.93 +   1.46)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:09 2006