Locus 4259

Sequence ID 3R_DroMel_CAF1
Location 11,394,307 – 11,394,422
Length 115
Max. P 0.915073
window6913 window6914

overview

Window 3

Location 11,394,307 – 11,394,422
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.96
Mean single sequence MFE -31.18
Consensus MFE -26.66
Energy contribution -27.38
Covariance contribution 0.72
Combinations/Pair 1.09
Mean z-score -1.65
Structure conservation index 0.86
SVM decision value 1.10
SVM RNA-class probability 0.915073
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11394307 115 + 27905053
G-----CCCCCAUCCAUGGUCAACACAUGUUAACAACUUGAUGGACGAAAAGUCAAACUGGCCAAAAGCUUACAUUGUAAGCAAACUAUGUGGAUGAGGGCUGGAGGUGGAUAUAUUCAC
(-----(((.((((((((((((.((((.((.....)).)).))(((.....)))....)))))....((((((...)))))).......))))))).)))).....(((((....))))) ( -37.00)
>DroSec_CAF1 142045 115 + 1
G-----CCCCCGUCCAUGGUCAACACAUGUUAACAACUUGAUGGACGAAAAGUCAAACUGGCCAAAAGCUUACAUUGUAAGUAAACUAUGUGGAUGAGGACUGGAGGUGGAUAUAUUCAC
(-----((((.((((.((((((.((((.((.....)).)).))(((.....)))....))))))...((((((...))))))...............)))).)).)))............ ( -28.40)
>DroSim_CAF1 133119 115 + 1
G-----CCCCCGUCCAUGGUCAACACAUGUUAACAACUUGAUGGACGAAAAGUCAAACUGGCCAAAAGCUUACAUUGUAAGCAAACUAUGUGGAUGAGGACUGGAGGUGGAUAUAUUCAC
(-----((((.((((.((((((.((((.((.....)).)).))(((.....)))....))))))...((((((...))))))...............)))).)).)))............ ( -30.70)
>DroEre_CAF1 130338 114 + 1
------CCCCCGUCCAUGGUCAACACAUGUUAACAACUUGAUGGACGAAAAGUCAAACUGCCCAAAAGCUUACAUUGUAAGCAAACUAUGUGGAUGAGGGCUGGAGGUGGAUAUACUCAC
------.((((((((((((.((.((((.((.....)).)).))(((.....)))....)).))....((((((...)))))).......))))))).)))...(((.........))).. ( -28.50)
>DroYak_CAF1 132952 120 + 1
ACCCGACUCCCGUCCAUGGUCAACACAUGUUAACAACUUGAUGGACGAAAAGUCAAACUGCCCAAAAGCUUACAUUGUAAGCAAACUAUGUGGAUGAGGACUGGAGGUUGAUAUAUUCAC
...(((((((.((((.(.(((..((((((((............(((.....))).............((((((...)))))).))).)))))))).))))).))).)))).......... ( -31.30)
>consensus
G_____CCCCCGUCCAUGGUCAACACAUGUUAACAACUUGAUGGACGAAAAGUCAAACUGGCCAAAAGCUUACAUUGUAAGCAAACUAUGUGGAUGAGGACUGGAGGUGGAUAUAUUCAC
.......(((((((((((((((.((((.((.....)).)).))(((.....)))....)))))....((((((...)))))).......))))))).)))......(((((....))))) (-26.66 = -27.38 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 11,394,307 – 11,394,422
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.96
Mean single sequence MFE -32.10
Consensus MFE -27.20
Energy contribution -27.08
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -1.66
Structure conservation index 0.85
SVM decision value 1.02
SVM RNA-class probability 0.900862
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11394307 115 - 27905053
GUGAAUAUAUCCACCUCCAGCCCUCAUCCACAUAGUUUGCUUACAAUGUAAGCUUUUGGCCAGUUUGACUUUUCGUCCAUCAAGUUGUUAACAUGUGUUGACCAUGGAUGGGGG-----C
(((........))).....(((((((((((((.(((((((.......)))))))..))........(((.....))).........((((((....))))))..))))))))))-----) ( -33.80)
>DroSec_CAF1 142045 115 - 1
GUGAAUAUAUCCACCUCCAGUCCUCAUCCACAUAGUUUACUUACAAUGUAAGCUUUUGGCCAGUUUGACUUUUCGUCCAUCAAGUUGUUAACAUGUGUUGACCAUGGACGGGGG-----C
.............(((((((((.....(((...(((((((.......)))))))..))).......))))....((((((......((((((....)))))).)))))))))))-----. ( -31.00)
>DroSim_CAF1 133119 115 - 1
GUGAAUAUAUCCACCUCCAGUCCUCAUCCACAUAGUUUGCUUACAAUGUAAGCUUUUGGCCAGUUUGACUUUUCGUCCAUCAAGUUGUUAACAUGUGUUGACCAUGGACGGGGG-----C
.............(((((((((.....(((...(((((((.......)))))))..))).......))))....((((((......((((((....)))))).)))))))))))-----. ( -31.00)
>DroEre_CAF1 130338 114 - 1
GUGAGUAUAUCCACCUCCAGCCCUCAUCCACAUAGUUUGCUUACAAUGUAAGCUUUUGGGCAGUUUGACUUUUCGUCCAUCAAGUUGUUAACAUGUGUUGACCAUGGACGGGGG------
.............(((((.((((..........(((((((.......)))))))...)))).............((((((......((((((....)))))).)))))))))))------ ( -32.12)
>DroYak_CAF1 132952 120 - 1
GUGAAUAUAUCAACCUCCAGUCCUCAUCCACAUAGUUUGCUUACAAUGUAAGCUUUUGGGCAGUUUGACUUUUCGUCCAUCAAGUUGUUAACAUGUGUUGACCAUGGACGGGAGUCGGGU
............((((..........((((...(((((((.......)))))))..))))......(((.(..(((((((......((((((....)))))).)))))))..)))))))) ( -32.60)
>consensus
GUGAAUAUAUCCACCUCCAGUCCUCAUCCACAUAGUUUGCUUACAAUGUAAGCUUUUGGCCAGUUUGACUUUUCGUCCAUCAAGUUGUUAACAUGUGUUGACCAUGGACGGGGG_____C
.............(((((.........(((...(((((((.......)))))))..)))...............((((((......((((((....)))))).)))))))))))...... (-27.20 = -27.08 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:47 2006