Locus 5789

Sequence ID 3R_DroMel_CAF1
Location 15,109,702 – 15,109,830
Length 128
Max. P 0.586491
window9487 window9488

overview

Window 7

Location 15,109,702 – 15,109,798
Length 96
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 85.71
Mean single sequence MFE -24.00
Consensus MFE -17.38
Energy contribution -17.38
Covariance contribution 0.00
Combinations/Pair 1.19
Mean z-score -1.55
Structure conservation index 0.72
SVM decision value -0.05
SVM RNA-class probability 0.506850
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15109702 96 + 27905053
CUCUCAGAGUUCGGCGAGCUAUC----CAUCCUUUGGCUUUAUGGCAUUCGUUCGCCUUCGUUCGAGUUUUUGGCUGGCUUAAUGUUUCAAUAUUGUCGA
..........(((((((((((.(----((.......(((....)))(((((..((....))..)))))...))).))))))(((((....)))))))))) ( -22.40)
>DroSec_CAF1 34195 100 + 1
CUCUCCAAGUUCGACGAGCCAUCCAUCCAUCCUUUGGCUUUAUGGCAUUCGUUCGCCUUCGUUCGAGUUUUUGGCUGGCUUAAUGUUUUAAUAUUGUCGA
..........(((((((((((.(((...........(((....)))(((((..((....))..)))))...))).))))))(((((....)))))))))) ( -25.30)
>DroSim_CAF1 32383 100 + 1
CUCUCACAGUUCGACGAGCCAUCCAUCCAUCCUUUGGCUUUAUGGCAUUCGUUCGCCUUCGUUCGAGUUUUUGGCUGGCUUAAUGUUUCAAUAUUGUCGA
..........(((((((((((.(((...........(((....)))(((((..((....))..)))))...))).))))))(((((....)))))))))) ( -25.30)
>DroEre_CAF1 33361 87 + 1
CUCUCAGAGUUCGACGGGCC--------AUCCUUUGGCCUUAUGGCUUUCGCUUGCCUUCG-----GUUUUUGGCCGGCUUAAUGUUUCAAUAUUGUCGA
..........((((((((((--------(.....))))))...(((........))).(((-----((.....))))).................))))) ( -24.60)
>DroYak_CAF1 27315 88 + 1
CUCUUACAGUUCGACGAGCC--------AUCCUUUGGCUUUAUCGCAUUCGUUCGCCUUCG----AGAUUUUGGCUGGGUUAAUGUUUCAAUAUUGUCGA
..........((((((((((--------(.....))))))....(((((.(..((((....----.......))).)..).))))).........))))) ( -22.40)
>consensus
CUCUCACAGUUCGACGAGCCAUC____CAUCCUUUGGCUUUAUGGCAUUCGUUCGCCUUCGUUCGAGUUUUUGGCUGGCUUAAUGUUUCAAUAUUGUCGA
..........(((((((((((.............))))))....(((((.((..(((...............)))..))..))))).........))))) (-17.38 = -17.38 +   0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,109,727 – 15,109,830
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 89.89
Mean single sequence MFE -31.53
Consensus MFE -24.65
Energy contribution -24.63
Covariance contribution -0.02
Combinations/Pair 1.19
Mean z-score -2.50
Structure conservation index 0.78
SVM decision value 0.11
SVM RNA-class probability 0.586491
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15109727 103 + 27905053
UCCUUUGGCUUUAUGGCAUUCGUUCGCCUUCGUUCGAGUUUUUGGCUGGCUUAAUGUUUCAAUAUUGUCGAAUGCCGGGCCAAAGGAUGAUGAUCAAUGAUUG
((((((((((...((((((((((..(((...............)))..)).((((((....))))))..))))))))))))))))))................ ( -34.26)
>DroSec_CAF1 34224 103 + 1
UCCUUUGGCUUUAUGGCAUUCGUUCGCCUUCGUUCGAGUUUUUGGCUGGCUUAAUGUUUUAAUAUUGUCGAAAGCCGGGCCAAAGGAUGAUGAUCAAUGAUUG
((((((((((...(((((((((..((....))..)))))(((((((....((((....))))....)))))))))))))))))))))................ ( -31.60)
>DroSim_CAF1 32412 103 + 1
UCCUUUGGCUUUAUGGCAUUCGUUCGCCUUCGUUCGAGUUUUUGGCUGGCUUAAUGUUUCAAUAUUGUCGAAAGCCGGGCCAAAGGAUGAUGAUCAAUGAUUG
((((((((((...(((((((((..((....))..)))))(((((((....................)))))))))))))))))))))................ ( -30.05)
>DroEre_CAF1 33382 98 + 1
UCCUUUGGCCUUAUGGCUUUCGCUUGCCUUCG-----GUUUUUGGCCGGCUUAAUGUUUCAAUAUUGUCGAAAGCCGGGCCAAAGGAUGAUGAUCAAUGAUUG
(((((((((((...((((((((((.(((....-----......))).))).((((((....))))))..))))))))))))))))))................ ( -39.10)
>DroYak_CAF1 27336 99 + 1
UCCUUUGGCUUUAUCGCAUUCGUUCGCCUUCG----AGAUUUUGGCUGGGUUAAUGUUUCAAUAUUGUCGAAAGCCGGGCCAAAGGAUGAUGAUCAAUGAUUG
(((((((((((.......((((........))----)).....((((....((((((....)))))).....)))))))))))))))................ ( -26.40)
>DroAna_CAF1 33061 97 + 1
UCCUUUGGCUUUAUUGCAUUUGGUUUUUUU------GGCUUUCGGCUGGCUUAAUGUUUCAAUAUUGUCGAAAGCCGGACCGAAGGAUGAUGAUCAAUGAUUG
(((((((((......))..........(((------((((((((((....................))))))))))))).)))))))................ ( -27.75)
>consensus
UCCUUUGGCUUUAUGGCAUUCGUUCGCCUUCG____AGUUUUUGGCUGGCUUAAUGUUUCAAUAUUGUCGAAAGCCGGGCCAAAGGAUGAUGAUCAAUGAUUG
(((((((((((...(((.((((...(((...............))).....((((((....)))))).)))).))))))))))))))................ (-24.65 = -24.63 +  -0.02)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:51 2006