Locus 3612

Sequence ID 2L_DroMel_CAF1
Location 10,527,189 – 10,527,290
Length 101
Max. P 0.998991
window5703 window5704

overview

Window 3

Location 10,527,189 – 10,527,290
Length 101
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 94.65
Mean single sequence MFE -25.02
Consensus MFE -22.03
Energy contribution -21.73
Covariance contribution -0.30
Combinations/Pair 1.21
Mean z-score -2.08
Structure conservation index 0.88
SVM decision value 1.73
SVM RNA-class probability 0.974307
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10527189 101 + 22407834
CGAUAAUAACAUGCAUAAAUUUAUACAUUUAUGCUCAGCAGUCCAUUUAAUGAACUGCGCAUUGUUCGCUCUGAUUUGCAUAGCAAGUAAGUGCGUAGCUG
............((((((((......))))))))...(((((.(((...))).))))).....((((((.((.((((((...)))))).)).))).))).. ( -26.40)
>DroSec_CAF1 15540 101 + 1
CGAUAAUAACAUGCAUAAAUUUAUACAUUUAUGUUCAGCAGCCCAUUUAAUGAACUGCGCAUUGUUCGCUCUGAUUUGCAUAGCAAGUAAGUGCGUAGCUG
............((((((((......)))))))).((((.((.((((((..((((........))))(((.((.....)).)))...)))))).)).)))) ( -22.40)
>DroSim_CAF1 15328 101 + 1
CGAUAAUAACAUGCAUAAAUUUAUACAUUUAUGCUCAGCAGCCCAUUUAAUGAACUGCGCAUUGUUCGCUCUGAUUUGCAUAGCAAGUAAGUGCGUAGCUG
............((((((((......)))))))).((((.((.((((((..((((........))))(((.((.....)).)))...)))))).)).)))) ( -24.70)
>DroEre_CAF1 16015 101 + 1
CGAUAAUAACAUGCAUAAAUUUAUACAUUUAUGCUCAGCAGCCCAUUUAAUGAACUGCGCAUUGUUCGCUCUGAUUUGCAUAGCAAGUAACUGCGUAGCUG
............((((((((......)))))))).((((.((.........((((........))))((....((((((...))))))....)))).)))) ( -22.80)
>DroYak_CAF1 16011 101 + 1
CGAUAAUAACAUGCAUAAAUUUAUACAUUUAUGCUCGGCAGCUCAUUUAAUGAACUGCGCAUUGUUCGCUCUGAUUUGCAUAGCAAGUAAGUGCGUAGCUG
............((((((((......))))))))...((((.((((...)))).)))).....((((((.((.((((((...)))))).)).))).))).. ( -26.40)
>DroAna_CAF1 15752 101 + 1
CGAUAACAACAUGCAUAAAUUUAUAUAUUUAUGCUCAACAGCUCAUUUAAUGAACUGCACAUUGUUUGUGCUGUUUUGCAUAGCAAGUAUCUGCGUAGUUG
......((((.(((...............(((((..((((((.((..(((((.......)))))..)).))))))..)))))(((......)))))))))) ( -27.40)
>consensus
CGAUAAUAACAUGCAUAAAUUUAUACAUUUAUGCUCAGCAGCCCAUUUAAUGAACUGCGCAUUGUUCGCUCUGAUUUGCAUAGCAAGUAAGUGCGUAGCUG
............((((((((......)))))))).((((.((.((((((..((((........))))(((.((.....)).)))...)))))).)).)))) (-22.03 = -21.73 +  -0.30)

alignment

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secondary structure

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dotplot

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Window 4

Location 10,527,189 – 10,527,290
Length 101
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 94.65
Mean single sequence MFE -27.07
Consensus MFE -24.28
Energy contribution -24.28
Covariance contribution 0.00
Combinations/Pair 1.11
Mean z-score -2.82
Structure conservation index 0.90
SVM decision value 3.32
SVM RNA-class probability 0.998991
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10527189 101 - 22407834
CAGCUACGCACUUACUUGCUAUGCAAAUCAGAGCGAACAAUGCGCAGUUCAUUAAAUGGACUGCUGAGCAUAAAUGUAUAAAUUUAUGCAUGUUAUUAUCG
......(((.((.(.((((...)))).).)).)))((((....(((((((((...)))))))))...((((((((......)))))))).))))....... ( -28.00)
>DroSec_CAF1 15540 101 - 1
CAGCUACGCACUUACUUGCUAUGCAAAUCAGAGCGAACAAUGCGCAGUUCAUUAAAUGGGCUGCUGAACAUAAAUGUAUAAAUUUAUGCAUGUUAUUAUCG
......(((.((.(.((((...)))).).)).)))((((.((((((((((((...))))))))).....((((((......)))))))))))))....... ( -24.50)
>DroSim_CAF1 15328 101 - 1
CAGCUACGCACUUACUUGCUAUGCAAAUCAGAGCGAACAAUGCGCAGUUCAUUAAAUGGGCUGCUGAGCAUAAAUGUAUAAAUUUAUGCAUGUUAUUAUCG
......(((.((.(.((((...)))).).)).)))((((....(((((((((...)))))))))...((((((((......)))))))).))))....... ( -27.50)
>DroEre_CAF1 16015 101 - 1
CAGCUACGCAGUUACUUGCUAUGCAAAUCAGAGCGAACAAUGCGCAGUUCAUUAAAUGGGCUGCUGAGCAUAAAUGUAUAAAUUUAUGCAUGUUAUUAUCG
..((...((((....))))...))......((...((((....(((((((((...)))))))))...((((((((......)))))))).))))....)). ( -27.70)
>DroYak_CAF1 16011 101 - 1
CAGCUACGCACUUACUUGCUAUGCAAAUCAGAGCGAACAAUGCGCAGUUCAUUAAAUGAGCUGCCGAGCAUAAAUGUAUAAAUUUAUGCAUGUUAUUAUCG
......(((.((.(.((((...)))).).)).)))((((.((.(((((((((...))))))))))).((((((((......)))))))).))))....... ( -28.50)
>DroAna_CAF1 15752 101 - 1
CAACUACGCAGAUACUUGCUAUGCAAAACAGCACAAACAAUGUGCAGUUCAUUAAAUGAGCUGUUGAGCAUAAAUAUAUAAAUUUAUGCAUGUUGUUAUCG
.......((((....))))..(((......)))..(((((((((((((((((...)))))))))...((((((((......)))))))))))))))).... ( -26.20)
>consensus
CAGCUACGCACUUACUUGCUAUGCAAAUCAGAGCGAACAAUGCGCAGUUCAUUAAAUGGGCUGCUGAGCAUAAAUGUAUAAAUUUAUGCAUGUUAUUAUCG
..((...(((......)))...))......((...((((....(((((((((...)))))))))...((((((((......)))))))).))))....)). (-24.28 = -24.28 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:53 2006