Locus 5667

Sequence ID X_DroMel_CAF1
Location 14,658,915 – 14,659,015
Length 100
Max. P 0.996379
window9204 window9205

overview

Window 4

Location 14,658,915 – 14,659,015
Length 100
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -32.02
Consensus MFE -30.42
Energy contribution -30.42
Covariance contribution 0.00
Combinations/Pair 1.04
Mean z-score -2.70
Structure conservation index 0.95
SVM decision value 2.69
SVM RNA-class probability 0.996379
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14658915 100 + 22224390
GAGAGCAAGCGAGUUGUAAUUGAAUGUUUGGCUCUUAAUUAAAACAAGAAUUGUGACAGCCACGCUUUAAGGCGG--GGGGCGUGGCAAGCCCAAGCCUAAG
.(((((..((..((..(((((...(((((............)))))..)))))..)).))...))))).((((..--.((((.......))))..))))... ( -29.30)
>DroSec_CAF1 123092 94 + 1
GAGGGCAAGCGAGUUGUAAUUGAAUGUUUGGCUCUUAAUUAAAACAAGAAUUGUGGCAGCCACGCUUUAAGGCGG--GGGGCGUGGCAAGCCCAAG------
..((((......((..(((((...(((((............)))))..)))))..)).((((((((((.......--))))))))))..))))...------ ( -33.60)
>DroEre_CAF1 116363 93 + 1
GAGGGCAAGCGAGUUGUAAUUGAAUGUUUGGCUCUUAAUUAAAACAAGAAUUGUGGCAGCCACGCUUUAAGGCG---GGGGCGUGGCAAGCCCGGU------
..((((......((..(((((...(((((............)))))..)))))..)).((((((((((......---))))))))))..))))...------ ( -34.10)
>DroYak_CAF1 118994 93 + 1
GAGGGCAAGCGAGUUGUAAUUGAAUGUUUGGCUCUUAAUUAAAACAAGAAUUGUGACAGCCACGCUUUAAGGCGGAGGGGGCGUGGCAAGCCC---------
..((((......((..(((((...(((((............)))))..)))))..)).((((((((((.........))))))))))..))))--------- ( -31.10)
>consensus
GAGGGCAAGCGAGUUGUAAUUGAAUGUUUGGCUCUUAAUUAAAACAAGAAUUGUGACAGCCACGCUUUAAGGCGG__GGGGCGUGGCAAGCCCAAG______
..((((......((..(((((...(((((............)))))..)))))..)).((((((((((.........))))))))))..))))......... (-30.42 = -30.42 +   0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,658,915 – 14,659,015
Length 100
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 91.67
Mean single sequence MFE -22.95
Consensus MFE -21.87
Energy contribution -21.68
Covariance contribution -0.19
Combinations/Pair 1.06
Mean z-score -2.25
Structure conservation index 0.95
SVM decision value 2.12
SVM RNA-class probability 0.988493
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14658915 100 - 22224390
CUUAGGCUUGGGCUUGCCACGCCCC--CCGCCUUAAAGCGUGGCUGUCACAAUUCUUGUUUUAAUUAAGAGCCAAACAUUCAAUUACAACUCGCUUGCUCUC
....(((((((((..(((((((...--..........))))))).))).))).(((((.......))))))))............................. ( -24.02)
>DroSec_CAF1 123092 94 - 1
------CUUGGGCUUGCCACGCCCC--CCGCCUUAAAGCGUGGCUGCCACAAUUCUUGUUUUAAUUAAGAGCCAAACAUUCAAUUACAACUCGCUUGCCCUC
------...((((..(((((((...--..........)))))))........((((((.......)))))).........................)))).. ( -22.52)
>DroEre_CAF1 116363 93 - 1
------ACCGGGCUUGCCACGCCCC---CGCCUUAAAGCGUGGCUGCCACAAUUCUUGUUUUAAUUAAGAGCCAAACAUUCAAUUACAACUCGCUUGCCCUC
------...((((..(((((((...---.........)))))))........((((((.......)))))).........................)))).. ( -22.90)
>DroYak_CAF1 118994 93 - 1
---------GGGCUUGCCACGCCCCCUCCGCCUUAAAGCGUGGCUGUCACAAUUCUUGUUUUAAUUAAGAGCCAAACAUUCAAUUACAACUCGCUUGCCCUC
---------((((..(((((((...............)))))))........((((((.......)))))).........................)))).. ( -22.36)
>consensus
______CUUGGGCUUGCCACGCCCC__CCGCCUUAAAGCGUGGCUGCCACAAUUCUUGUUUUAAUUAAGAGCCAAACAUUCAAUUACAACUCGCUUGCCCUC
.........((((..(((((((...............)))))))........((((((.......)))))).........................)))).. (-21.87 = -21.68 +  -0.19)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:36 2006