Locus 4839

Sequence ID 2R_DroMel_CAF1
Location 15,881,900 – 15,881,997
Length 97
Max. P 0.938603
window7777 window7778

overview

Window 7

Location 15,881,900 – 15,881,997
Length 97
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 97.01
Mean single sequence MFE -8.58
Consensus MFE -8.48
Energy contribution -8.48
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.01
Structure conservation index 0.99
SVM decision value 1.29
SVM RNA-class probability 0.938603
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15881900 97 + 20766785
UAUUUAUACGAGACCACAAUUUUGUACUUUGCAUUUUCUUUAUUUCUUUCCGCAUUUGAGCUCGUCUCUCCUUUUGGCAUUUCCAUCA---UCCUUUCCC
.........(((((........(((.....)))..................((......))..)))))......(((.....)))...---......... (  -8.50)
>DroSec_CAF1 19013 97 + 1
UAUUUAUACGAGACCACAAUUUUGUACUUUGCAUUUUCUUUAUUUCUUUCCGCAUUUGAGCUCGUCUCUCCUUUUGGCAUUUCCAUCA---UCCUUUCCC
.........(((((........(((.....)))..................((......))..)))))......(((.....)))...---......... (  -8.50)
>DroSim_CAF1 16444 97 + 1
UAUUUAUACGAGACCACAAUUUUGUACUUUGCAUUUUCUUUAUUUCUUUCCGCAUUUGAGCUCGUCUCUCCUUUUGGCAUUUCCAUCA---UCCUUUCCC
.........(((((........(((.....)))..................((......))..)))))......(((.....)))...---......... (  -8.50)
>DroEre_CAF1 16792 97 + 1
UAUUUAUACGAGACCACAAUUUUGUACUUUGCAUUUUCUUUAUUUCUUUCCGCAUUUGAGCUCGUCUCUCCUUUUGGCAUUUCCAUCA---UCCUUUCAG
.........(((((........(((.....)))..................((......))..)))))......(((.....)))...---......... (  -8.50)
>DroYak_CAF1 19528 97 + 1
UAUUUAUACGAGACCACAAUUUUGUACUUUGCAUUUUCUUUAUUUCUUUCCGCAUUUGAGCUCGUCUCUCCUUUUGGCAUUUCCAUCA---UCCUUUCAA
.........(((((........(((.....)))..................((......))..)))))......(((.....)))...---......... (  -8.50)
>DroAna_CAF1 11838 100 + 1
UAUUUAUACGAGACCACAAUUUUGUACUUUGCAUUUUCUUUAUUUCUUUCAGCAUUUCAGCUCGUCUCUCCUUUUGGCAUUUCCAUCAUCAUCCUUUCCA
.........(((((........(((.....))).................(((......))).)))))......(((.....)))............... (  -9.00)
>consensus
UAUUUAUACGAGACCACAAUUUUGUACUUUGCAUUUUCUUUAUUUCUUUCCGCAUUUGAGCUCGUCUCUCCUUUUGGCAUUUCCAUCA___UCCUUUCCC
.........(((((........(((.....)))..................((......))..)))))......(((.....)))............... ( -8.48 =  -8.48 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,881,900 – 15,881,997
Length 97
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 97.01
Mean single sequence MFE -12.40
Consensus MFE -12.12
Energy contribution -12.12
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.95
Structure conservation index 0.98
SVM decision value 0.92
SVM RNA-class probability 0.882731
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15881900 97 - 20766785
GGGAAAGGA---UGAUGGAAAUGCCAAAAGGAGAGACGAGCUCAAAUGCGGAAAGAAAUAAAGAAAAUGCAAAGUACAAAAUUGUGGUCUCGUAUAAAUA
.........---...(((.....)))......(((((..((......)).........................((((....)))))))))......... ( -12.20)
>DroSec_CAF1 19013 97 - 1
GGGAAAGGA---UGAUGGAAAUGCCAAAAGGAGAGACGAGCUCAAAUGCGGAAAGAAAUAAAGAAAAUGCAAAGUACAAAAUUGUGGUCUCGUAUAAAUA
.........---...(((.....)))......(((((..((......)).........................((((....)))))))))......... ( -12.20)
>DroSim_CAF1 16444 97 - 1
GGGAAAGGA---UGAUGGAAAUGCCAAAAGGAGAGACGAGCUCAAAUGCGGAAAGAAAUAAAGAAAAUGCAAAGUACAAAAUUGUGGUCUCGUAUAAAUA
.........---...(((.....)))......(((((..((......)).........................((((....)))))))))......... ( -12.20)
>DroEre_CAF1 16792 97 - 1
CUGAAAGGA---UGAUGGAAAUGCCAAAAGGAGAGACGAGCUCAAAUGCGGAAAGAAAUAAAGAAAAUGCAAAGUACAAAAUUGUGGUCUCGUAUAAAUA
((....)).---...(((.....)))......(((((..((......)).........................((((....)))))))))......... ( -12.60)
>DroYak_CAF1 19528 97 - 1
UUGAAAGGA---UGAUGGAAAUGCCAAAAGGAGAGACGAGCUCAAAUGCGGAAAGAAAUAAAGAAAAUGCAAAGUACAAAAUUGUGGUCUCGUAUAAAUA
.........---...(((.....)))......(((((..((......)).........................((((....)))))))))......... ( -12.20)
>DroAna_CAF1 11838 100 - 1
UGGAAAGGAUGAUGAUGGAAAUGCCAAAAGGAGAGACGAGCUGAAAUGCUGAAAGAAAUAAAGAAAAUGCAAAGUACAAAAUUGUGGUCUCGUAUAAAUA
...............(((.....)))......(((((.(((......)))........................((((....)))))))))......... ( -13.00)
>consensus
GGGAAAGGA___UGAUGGAAAUGCCAAAAGGAGAGACGAGCUCAAAUGCGGAAAGAAAUAAAGAAAAUGCAAAGUACAAAAUUGUGGUCUCGUAUAAAUA
...............(((.....)))......(((((..((......)).........................((((....)))))))))......... (-12.12 = -12.12 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:34 2006