Locus 3599

Sequence ID 2R_DroMel_CAF1
Location 11,977,852 – 11,977,943
Length 91
Max. P 0.984915
window5864 window5865

overview

Window 4

Location 11,977,852 – 11,977,943
Length 91
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 97.88
Mean single sequence MFE -20.13
Consensus MFE -19.41
Energy contribution -19.27
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -1.40
Structure conservation index 0.96
SVM decision value 1.99
SVM RNA-class probability 0.984915
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11977852 91 + 20766785
-CCGAGAGAGCAGCGAAAAUUGCAAUUAAGAUAAUUAUCUGGCAAAAGCAAAAGUGUAAAUCCUUUGCGCUCCAAGGAUUAUGCAACUGCAG
-((..(.((((.(((((..((((.....((((....)))).))))..(((....)))......))))))))))..))....(((....))). ( -20.00)
>DroSec_CAF1 29069 91 + 1
-UCGAGAGAGCAGCGAAAAUUGCAAUUAAGAUAAUUAUCUGGCAAAAGCAAAAGUGUAAAUCCUUUGCGCUCCAAGGAUUAUGCAACUGCAG
-((....))((((......((((.....((((....)))).)))).........(((((((((((........))))))).)))).)))).. ( -20.50)
>DroSim_CAF1 32588 91 + 1
-UCGAGAGAGCAGCGAAAAUUGCAAUUAAGAUAAUUAUCUGGCAAAAGCAAAAGUGUAAAUCCUUUGCGCUCCAAGGAUUAUGCAACUGCAG
-((....))((((......((((.....((((....)))).)))).........(((((((((((........))))))).)))).)))).. ( -20.50)
>DroEre_CAF1 29399 91 + 1
-UCGAGAGAGCAGCGAAAAUUGCAAUUAAGAUAAUUAUCUGGCAAAAGCAAAAGUGUAAAUCCUUUGCGCUCCAAGGAUUAUGCAACUGCAG
-((....))((((......((((.....((((....)))).)))).........(((((((((((........))))))).)))).)))).. ( -20.50)
>DroYak_CAF1 29771 91 + 1
-UCGAGAAAGCAGCGAAAAUUGCAAUUAAGAUAAUUAUCUGGCAAAAGCAAAAGUGUAAAUCCUUUGCGCUCCAAGGAUUAUGCAACUGCAG
-........((((......((((.....((((....)))).)))).........(((((((((((........))))))).)))).)))).. ( -19.20)
>DroAna_CAF1 30277 92 + 1
AGCGAGUGAGCAGCGAAAAUUGCAAUUAAGAUAAUUAUCUGGCAAAAGCAAAAGUGUAAAUCCUUUGCGCUCCGAGGAUUAUGCAACUGCAG
.((.(((..(((((.....((((.....((((....)))).))))..)).........(((((((........))))))).))).))))).. ( -20.10)
>consensus
_UCGAGAGAGCAGCGAAAAUUGCAAUUAAGAUAAUUAUCUGGCAAAAGCAAAAGUGUAAAUCCUUUGCGCUCCAAGGAUUAUGCAACUGCAG
.........((((......((((.....((((....)))).)))).........(((((((((((........))))))).)))).)))).. (-19.41 = -19.27 +  -0.14)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 11,977,852 – 11,977,943
Length 91
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 97.88
Mean single sequence MFE -18.38
Consensus MFE -17.75
Energy contribution -17.92
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.01
Structure conservation index 0.97
SVM decision value 0.90
SVM RNA-class probability 0.876904
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11977852 91 - 20766785
CUGCAGUUGCAUAAUCCUUGGAGCGCAAAGGAUUUACACUUUUGCUUUUGCCAGAUAAUUAUCUUAAUUGCAAUUUUCGCUGCUCUCUCGG-
.(((....)))....((..((((((((((((.......)))))))..((((.((((....)))).....))))........)))))...))- ( -18.60)
>DroSec_CAF1 29069 91 - 1
CUGCAGUUGCAUAAUCCUUGGAGCGCAAAGGAUUUACACUUUUGCUUUUGCCAGAUAAUUAUCUUAAUUGCAAUUUUCGCUGCUCUCUCGA-
..(((((((...(((((((........)))))))..))...((((..(((..((((....)))))))..)))).....)))))........- ( -18.30)
>DroSim_CAF1 32588 91 - 1
CUGCAGUUGCAUAAUCCUUGGAGCGCAAAGGAUUUACACUUUUGCUUUUGCCAGAUAAUUAUCUUAAUUGCAAUUUUCGCUGCUCUCUCGA-
..(((((((...(((((((........)))))))..))...((((..(((..((((....)))))))..)))).....)))))........- ( -18.30)
>DroEre_CAF1 29399 91 - 1
CUGCAGUUGCAUAAUCCUUGGAGCGCAAAGGAUUUACACUUUUGCUUUUGCCAGAUAAUUAUCUUAAUUGCAAUUUUCGCUGCUCUCUCGA-
..(((((((...(((((((........)))))))..))...((((..(((..((((....)))))))..)))).....)))))........- ( -18.30)
>DroYak_CAF1 29771 91 - 1
CUGCAGUUGCAUAAUCCUUGGAGCGCAAAGGAUUUACACUUUUGCUUUUGCCAGAUAAUUAUCUUAAUUGCAAUUUUCGCUGCUUUCUCGA-
..(((((((...(((((((........)))))))..))...((((..(((..((((....)))))))..)))).....)))))........- ( -18.30)
>DroAna_CAF1 30277 92 - 1
CUGCAGUUGCAUAAUCCUCGGAGCGCAAAGGAUUUACACUUUUGCUUUUGCCAGAUAAUUAUCUUAAUUGCAAUUUUCGCUGCUCACUCGCU
.((((((((.(((((..((((...(((((((.......))))))).....)).))..)))))..)))))))).........((......)). ( -18.50)
>consensus
CUGCAGUUGCAUAAUCCUUGGAGCGCAAAGGAUUUACACUUUUGCUUUUGCCAGAUAAUUAUCUUAAUUGCAAUUUUCGCUGCUCUCUCGA_
..(((((((...(((((((........)))))))..))...((((..(((..((((....)))))))..)))).....)))))......... (-17.75 = -17.92 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:36 2006