Locus 5780

Sequence ID 2L_DroMel_CAF1
Location 16,395,479 – 16,395,581
Length 102
Max. P 0.989811
window9160 window9161

overview

Window 0

Location 16,395,479 – 16,395,581
Length 102
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -27.50
Consensus MFE -22.38
Energy contribution -24.08
Covariance contribution 1.70
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.81
SVM decision value 2.18
SVM RNA-class probability 0.989811
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16395479 102 + 22407834
-----ACAAAGCAGCGGCAACAAUUAUGCGGAGCAUUUGGGCAAACCGAAAAGCUGAAAAGACCAACUAAUGCAAACAAUAGUUGAAUGUUUGCCAGCCAUUUCAUA
-----..........(((..(((..((((...)))))))(((((((.......((....))..((((((.((....)).))))))...))))))).)))........ ( -25.20)
>DroSec_CAF1 19910 102 + 1
-----ACAAAGCAGCGGCAACAAUUAUGCGGGGCAUUUGGGCAAACCGAAAAGCUGAAAAGACCAACUAAUGCAAACAAUAGUUGAAUGUUUGCCAGCCAUUUCAUA
-----.((((((..(.(((.......))).).)).))))(((((((.......((....))..((((((.((....)).))))))...)))))))............ ( -25.20)
>DroSim_CAF1 18413 102 + 1
-----ACAAAGCAGCGGCAACAAUUAUGCGGGGCAUUUGGGCAAACCGAAAAGCUGAAAAGACCAACUAAUGCAAACAAUAGUUGAAUGUUUGCCAGCCAUUUCAUA
-----.((((((..(.(((.......))).).)).))))(((((((.......((....))..((((((.((....)).))))))...)))))))............ ( -25.20)
>DroEre_CAF1 16420 107 + 1
AGGCAACAAUGCGGCGGCAACAAUUAUGCGCGGCAUUUGGGCAAACCGAAAAGCUGAAAAGAGCAACUAAUGCAAACAAUAGUUGAAUGUUUGCCAGCCAUUUCAUA
.(((..((((((.(((.((.......))))).))).)))(((((((.......((....))..((((((.((....)).))))))...))))))).)))........ ( -34.00)
>DroYak_CAF1 20466 107 + 1
AGGCAACAAUGCGGCGGCAACAAUUAUGCGGGGCAUUUGGGAAAACCGAAAAGCUGAAAAGACCAACUAAUGCAAACAAUAGUUGAAUGUUUGCCAGCCAUUUCAUA
..(((....)))((((((((((.........(((.(((.((....)).))).)))........((((((.((....)).))))))..)).))))).)))........ ( -27.90)
>consensus
_____ACAAAGCAGCGGCAACAAUUAUGCGGGGCAUUUGGGCAAACCGAAAAGCUGAAAAGACCAACUAAUGCAAACAAUAGUUGAAUGUUUGCCAGCCAUUUCAUA
...............(((..(((..((((...)))))))(((((((.......((....))..((((((.((....)).))))))...))))))).)))........ (-22.38 = -24.08 +   1.70)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,395,479 – 16,395,581
Length 102
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 94.50
Mean single sequence MFE -26.06
Consensus MFE -22.94
Energy contribution -23.10
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.61
Structure conservation index 0.88
SVM decision value 1.36
SVM RNA-class probability 0.945903
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16395479 102 - 22407834
UAUGAAAUGGCUGGCAAACAUUCAACUAUUGUUUGCAUUAGUUGGUCUUUUCAGCUUUUCGGUUUGCCCAAAUGCUCCGCAUAAUUGUUGCCGCUGCUUUGU-----
.(..((..(((.(((((.((.(((((((.((....)).))))))).......(((.(((.((....)).))).))).........))))))))))..))..)----- ( -24.80)
>DroSec_CAF1 19910 102 - 1
UAUGAAAUGGCUGGCAAACAUUCAACUAUUGUUUGCAUUAGUUGGUCUUUUCAGCUUUUCGGUUUGCCCAAAUGCCCCGCAUAAUUGUUGCCGCUGCUUUGU-----
.(..((..(((.(((((.((.(((((((.((....)).)))))))........((.(((.((....)).))).))..........))))))))))..))..)----- ( -23.80)
>DroSim_CAF1 18413 102 - 1
UAUGAAAUGGCUGGCAAACAUUCAACUAUUGUUUGCAUUAGUUGGUCUUUUCAGCUUUUCGGUUUGCCCAAAUGCCCCGCAUAAUUGUUGCCGCUGCUUUGU-----
.(..((..(((.(((((.((.(((((((.((....)).)))))))........((.(((.((....)).))).))..........))))))))))..))..)----- ( -23.80)
>DroEre_CAF1 16420 107 - 1
UAUGAAAUGGCUGGCAAACAUUCAACUAUUGUUUGCAUUAGUUGCUCUUUUCAGCUUUUCGGUUUGCCCAAAUGCCGCGCAUAAUUGUUGCCGCCGCAUUGUUGCCU
........(((.(((((((....(((((.((....)).)))))(((......)))......)))))))..(((((.(((((.......)).))).)))))...))). ( -31.40)
>DroYak_CAF1 20466 107 - 1
UAUGAAAUGGCUGGCAAACAUUCAACUAUUGUUUGCAUUAGUUGGUCUUUUCAGCUUUUCGGUUUUCCCAAAUGCCCCGCAUAAUUGUUGCCGCCGCAUUGUUGCCU
...((((.((((((.(((...(((((((.((....)).)))))))..)))))))))))))(((.......(((((..((((.......)).))..)))))...))). ( -26.50)
>consensus
UAUGAAAUGGCUGGCAAACAUUCAACUAUUGUUUGCAUUAGUUGGUCUUUUCAGCUUUUCGGUUUGCCCAAAUGCCCCGCAUAAUUGUUGCCGCUGCUUUGU_____
.(..((.((((.(((((.((..((((((.((....)).)))))).........((.(((.((....)).))).))..........))))))))))).))..)..... (-22.94 = -23.10 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:38 2006