Locus 3257

Sequence ID 3R_DroMel_CAF1
Location 8,691,801 – 8,691,920
Length 119
Max. P 0.994358
window5263 window5264

overview

Window 3

Location 8,691,801 – 8,691,920
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 92.15
Mean single sequence MFE -26.10
Consensus MFE -24.40
Energy contribution -24.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.93
SVM decision value 2.47
SVM RNA-class probability 0.994358
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8691801 119 + 27905053
CAGUGGAUGUCCCUUGCCAAUUUCCAUUGUCGGCUGCGUGCAGCUGCGUAGCCACCAAGCCACCAGUGCUCCACUGCCACCCUAAUGUACCCAAAACUGCACAAAUCCACCCACAGACC
..((((((......(((.........(((..((((((((......))))))))..))).....(((((...)))))......................)))...))))))......... ( -28.70)
>DroSec_CAF1 118328 119 + 1
CAGUGGAUGUCCCUUGCCAAUUUCCAUUGUCGGCUGCGUGCAGCUGCGUAGCCACCAAACCACCAGCGCUCCACUGCCACCCUAAUGUACCCAAAACUAUACAAAUCCACCCACAGACC
((((((((((.....(.((((....)))).)((((((((......))))))))............))).)))))))........................................... ( -25.80)
>DroSim_CAF1 134906 119 + 1
CAGUGGAUGUCCCUUGCCAAUUUCCAUUGUCGGCUGCGUGCAGCUGCGUAGCCACCAAACCACCAGCGCUCCACUGCCACCCUAAUGUACCCAAAACUAUACAAAUCCACCCACAGACC
((((((((((.....(.((((....)))).)((((((((......))))))))............))).)))))))........................................... ( -25.80)
>DroEre_CAF1 132231 108 + 1
CAGUGGAUGUCCCUUGCCAAUUUCUAUUGUCGGCUGCGUGCAGCUGCGUAGCCACCAAACCACCAGUGCUCCA--GCCACCCUAAUGUACCCAAAACUUUCCAAAUCCAC---------
..((((((.......(.((((....)))).)(((((.(.(((.(((.((.(........).)))))))).)))--)))..........................))))))--------- ( -24.70)
>DroYak_CAF1 124716 113 + 1
CAGUGGAUGUCCCUUGCCAAUUUCUAUUGUCGGCUGCGUGCAGCUGCGUAGCCACCAAACCACCAGUGCUCCA--GCCACCCUAAUAUACCCAAAACUAUCCAAAUCCACCCACA----
..((((((.......(.((((....)))).)(((((.(.(((.(((.((.(........).)))))))).)))--)))..........................)))))).....---- ( -25.50)
>consensus
CAGUGGAUGUCCCUUGCCAAUUUCCAUUGUCGGCUGCGUGCAGCUGCGUAGCCACCAAACCACCAGUGCUCCACUGCCACCCUAAUGUACCCAAAACUAUACAAAUCCACCCACAGACC
..((((((..................(((..((((((((......))))))))..))).......(.((......)))..........................))))))......... (-24.40 = -24.40 +   0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 8,691,801 – 8,691,920
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 92.15
Mean single sequence MFE -40.32
Consensus MFE -34.26
Energy contribution -35.10
Covariance contribution 0.84
Combinations/Pair 1.10
Mean z-score -1.57
Structure conservation index 0.85
SVM decision value 0.92
SVM RNA-class probability 0.881530
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8691801 119 - 27905053
GGUCUGUGGGUGGAUUUGUGCAGUUUUGGGUACAUUAGGGUGGCAGUGGAGCACUGGUGGCUUGGUGGCUACGCAGCUGCACGCAGCCGACAAUGGAAAUUGGCAAGGGACAUCCACUG
.....(((((((..(((((((((((.(((((.(((((((.((.(((((...))))).)).)))))))))).)).))))))))...(((((.........))))).)))..))))))).. ( -45.50)
>DroSec_CAF1 118328 119 - 1
GGUCUGUGGGUGGAUUUGUAUAGUUUUGGGUACAUUAGGGUGGCAGUGGAGCGCUGGUGGUUUGGUGGCUACGCAGCUGCACGCAGCCGACAAUGGAAAUUGGCAAGGGACAUCCACUG
.....(((((((..(((((.....................((((.(((..((((((((((((....)))))).)))).)).))).)))).((((....)))))))))...))))))).. ( -41.50)
>DroSim_CAF1 134906 119 - 1
GGUCUGUGGGUGGAUUUGUAUAGUUUUGGGUACAUUAGGGUGGCAGUGGAGCGCUGGUGGUUUGGUGGCUACGCAGCUGCACGCAGCCGACAAUGGAAAUUGGCAAGGGACAUCCACUG
.....(((((((..(((((.....................((((.(((..((((((((((((....)))))).)))).)).))).)))).((((....)))))))))...))))))).. ( -41.50)
>DroEre_CAF1 132231 108 - 1
---------GUGGAUUUGGAAAGUUUUGGGUACAUUAGGGUGGC--UGGAGCACUGGUGGUUUGGUGGCUACGCAGCUGCACGCAGCCGACAAUAGAAAUUGGCAAGGGACAUCCACUG
---------((((((.(....)(((((..((.........((((--(((.((((((((((((....)))))).))).))).).)))))).((((....))))))..))))))))))).. ( -34.10)
>DroYak_CAF1 124716 113 - 1
----UGUGGGUGGAUUUGGAUAGUUUUGGGUAUAUUAGGGUGGC--UGGAGCACUGGUGGUUUGGUGGCUACGCAGCUGCACGCAGCCGACAAUAGAAAUUGGCAAGGGACAUCCACUG
----.(((((((..((((..(((((((.....((((.(..((((--(((.((((((((((((....)))))).))).))).).)))))).)))))))))))).))))...))))))).. ( -39.00)
>consensus
GGUCUGUGGGUGGAUUUGUAUAGUUUUGGGUACAUUAGGGUGGCAGUGGAGCACUGGUGGUUUGGUGGCUACGCAGCUGCACGCAGCCGACAAUGGAAAUUGGCAAGGGACAUCCACUG
.....(((((((..(((...(((((((.....((((.(..((((.(((..((((((((((((....)))))).))).))).))).)))).))))))))))))...)))..))))))).. (-34.26 = -35.10 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:52 2006