Locus 2685

Sequence ID 2L_DroMel_CAF1
Location 7,502,789 – 7,502,881
Length 92
Max. P 0.999235
window4271 window4272

overview

Window 1

Location 7,502,789 – 7,502,881
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 96.52
Mean single sequence MFE -24.76
Consensus MFE -22.81
Energy contribution -23.03
Covariance contribution 0.22
Combinations/Pair 1.08
Mean z-score -1.97
Structure conservation index 0.92
SVM decision value 2.52
SVM RNA-class probability 0.994875
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7502789 92 + 22407834
CCGAGUUUCCAGCCAGUUGACUGCACCGCUAAUGAAUUGCAUUGUCAGUCAUUUGGGUGCAUAUCCAAUGGAUUUUGACAUCCAUCGCUCUA
..((((...((.((((.((((((((..((.........))..)).)))))).)))).))........((((((......)))))).)))).. ( -26.00)
>DroSec_CAF1 5069 92 + 1
CCGAGUUUCCAGCCAGUUGACUGCACCGCUAAUGAAUUGCAUUGUCAGUCAUUUGGGUGCAUAUCCAAUGGAUUUUGACAUCCAUCGCUCUA
..((((...((.((((.((((((((..((.........))..)).)))))).)))).))........((((((......)))))).)))).. ( -26.00)
>DroSim_CAF1 7292 92 + 1
CCGAGUUUCCAGCCAGUUGACUGCACCGCUAAUGAAUUGCAUUGUCAGUCAUUUGGGUGCAUAUCCAAUGGAUUUUGACAUCCAUCGCUCUA
..((((...((.((((.((((((((..((.........))..)).)))))).)))).))........((((((......)))))).)))).. ( -26.00)
>DroEre_CAF1 3812 92 + 1
CCGAGUUUCCAGCCAGCUGACUGCACCGCUAAUGAAUUGCAUUGUCAGUCAUUUGGGUGCAUAUCCAAUGGAUUUUGACAUCCAUCGCUCUA
..((((...((.((((.((((((((..((.........))..)).)))))).)))).))........((((((......)))))).)))).. ( -26.00)
>DroYak_CAF1 4235 92 + 1
UUGAGUUUCCAGCCAGUUGACUGCACCGCUAAUGAAUUGCAUUGUCAGUCAUUUGGGUGCAUAUCCAAUGCAUUUUGACAUCCAUCGCUCUA
..((((......((((.((((((((..((.........))..)).)))))).))))((((((.....)))))).............)))).. ( -23.80)
>DroAna_CAF1 5336 92 + 1
CCGAGUUUCCAGUUAGUUGACUGCACCGCUAAUGAAUUGCAUUGUCAGUCAUUUGGGUGCAUAUCCAAUACAUUUUGACAUCCAUCGCUCAG
..((((...........((((((((..((.........))..)).))))))..((((((((..............)).))))))..)))).. ( -20.74)
>consensus
CCGAGUUUCCAGCCAGUUGACUGCACCGCUAAUGAAUUGCAUUGUCAGUCAUUUGGGUGCAUAUCCAAUGGAUUUUGACAUCCAUCGCUCUA
..((((...((.((((.((((((((..((.........))..)).)))))).)))).))........((((((......)))))).)))).. (-22.81 = -23.03 +   0.22)

alignment

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secondary structure

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dotplot

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Window 2

Location 7,502,789 – 7,502,881
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 96.52
Mean single sequence MFE -27.45
Consensus MFE -25.66
Energy contribution -26.18
Covariance contribution 0.53
Combinations/Pair 1.04
Mean z-score -2.28
Structure conservation index 0.93
SVM decision value 3.45
SVM RNA-class probability 0.999235
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7502789 92 - 22407834
UAGAGCGAUGGAUGUCAAAAUCCAUUGGAUAUGCACCCAAAUGACUGACAAUGCAAUUCAUUAGCGGUGCAGUCAACUGGCUGGAAACUCGG
..(((((((((((......))))))))....(.((.(((..((((((.((.(((.........))).))))))))..))).)).)..))).. ( -29.10)
>DroSec_CAF1 5069 92 - 1
UAGAGCGAUGGAUGUCAAAAUCCAUUGGAUAUGCACCCAAAUGACUGACAAUGCAAUUCAUUAGCGGUGCAGUCAACUGGCUGGAAACUCGG
..(((((((((((......))))))))....(.((.(((..((((((.((.(((.........))).))))))))..))).)).)..))).. ( -29.10)
>DroSim_CAF1 7292 92 - 1
UAGAGCGAUGGAUGUCAAAAUCCAUUGGAUAUGCACCCAAAUGACUGACAAUGCAAUUCAUUAGCGGUGCAGUCAACUGGCUGGAAACUCGG
..(((((((((((......))))))))....(.((.(((..((((((.((.(((.........))).))))))))..))).)).)..))).. ( -29.10)
>DroEre_CAF1 3812 92 - 1
UAGAGCGAUGGAUGUCAAAAUCCAUUGGAUAUGCACCCAAAUGACUGACAAUGCAAUUCAUUAGCGGUGCAGUCAGCUGGCUGGAAACUCGG
..(((((((((((......))))))))....(.((.(((..((((((.((.(((.........))).))))))))..))).)).)..))).. ( -30.30)
>DroYak_CAF1 4235 92 - 1
UAGAGCGAUGGAUGUCAAAAUGCAUUGGAUAUGCACCCAAAUGACUGACAAUGCAAUUCAUUAGCGGUGCAGUCAACUGGCUGGAAACUCAA
..((((((((.((......)).)))))....(.((.(((..((((((.((.(((.........))).))))))))..))).)).)..))).. ( -24.40)
>DroAna_CAF1 5336 92 - 1
CUGAGCGAUGGAUGUCAAAAUGUAUUGGAUAUGCACCCAAAUGACUGACAAUGCAAUUCAUUAGCGGUGCAGUCAACUAACUGGAAACUCGG
((((((((((.((......)).)))))(((.(((((((.(((((.((......))..))))).).))))))))).............))))) ( -22.70)
>consensus
UAGAGCGAUGGAUGUCAAAAUCCAUUGGAUAUGCACCCAAAUGACUGACAAUGCAAUUCAUUAGCGGUGCAGUCAACUGGCUGGAAACUCGG
..(((((((((((......))))))))....(.((.(((..((((((.((.(((.........))).))))))))..))).)).)..))).. (-25.66 = -26.18 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:41 2006