Locus 6509

Sequence ID 2L_DroMel_CAF1
Location 18,301,410 – 18,301,540
Length 130
Max. P 0.689216
window10386 window10387

overview

Window 6

Location 18,301,410 – 18,301,504
Length 94
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 95.04
Mean single sequence MFE -23.88
Consensus MFE -22.07
Energy contribution -21.63
Covariance contribution -0.44
Combinations/Pair 1.10
Mean z-score -1.81
Structure conservation index 0.92
SVM decision value 0.32
SVM RNA-class probability 0.689216
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18301410 94 - 22407834
GAAAAGUGUGGGGACGGCAUGGAAACCCAAAUGAAAACCGGGAAACCUGUUAUGCGAGAGCAGGGUAAACAGACAGCGAGACAGCUAGGGUUGA
.....(((((....).))))...(((((........(((((....)).....(((....))).)))........(((......))).))))).. ( -26.60)
>DroEre_CAF1 146652 94 - 1
GAAAAGUGUGGGGACGGCAUGAAGACCCAUAUGAAAACCGGGAAACCUGUUAUACGAGAGCAGGGCAAACAGACGGCGAGACAGCUAGGGUUGA
.....(((((((.............)))))))...((((......((((((.......))))))..........(((......)))..)))).. ( -22.52)
>DroYak_CAF1 155894 94 - 1
GAAAAGUGUGGGGACGGCAUGAAAACCCAUAUGAAAACCGGGAAACCUGUUAUAUGAGAGCAGGGCAAACAGACAGCGAGACAGCUAGGGUUGA
.....(((((((.............)))))))...((((......((((((.......))))))..........(((......)))..)))).. ( -22.52)
>consensus
GAAAAGUGUGGGGACGGCAUGAAAACCCAUAUGAAAACCGGGAAACCUGUUAUACGAGAGCAGGGCAAACAGACAGCGAGACAGCUAGGGUUGA
.....(((((....).))))...(((((.........((((....))((((.......))))))..........(((......))).))))).. (-22.07 = -21.63 +  -0.44)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 18,301,439 – 18,301,540
Length 101
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 94.74
Mean single sequence MFE -26.59
Consensus MFE -21.72
Energy contribution -21.92
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.39
Structure conservation index 0.82
SVM decision value -0.03
SVM RNA-class probability 0.516554
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18301439 101 - 22407834
UCAAGACAACCCG----ACCAUCUAUCAAAUGAGGAGUUGGAAAAGUGUGGGGACGGCAUGGAAACCCAAAUGAAAACCGGGAAACCUGUUAUGCGAGAGCAGGG
..........(((----(((.((........)).).)))))....(((((....).)))).....(((.......(((.((....)).))).(((....)))))) ( -26.10)
>DroSec_CAF1 145358 101 - 1
UCAAGACAACCCG----ACCAUCUAUCAAAUGAGCAGUUGGAAAAGUGUGGGGACGGCAUGGAAACCCAAAUGAAAACCGGGAAACCUGUUAUGCGAGAGCAGGG
.............----.(((((..((......(((.((....)).)))...))..).))))...(((.......(((.((....)).))).(((....)))))) ( -26.20)
>DroSim_CAF1 153086 101 - 1
UCAAGACAACCCG----ACCAUCUAUCAAAUGAGCAGUUGGAAAAGUGUGGGGACGGCAUGGAAACCCAAAUGAAAACCGGGAAACCUGUUAUGCGAGAGCAGGG
.............----.(((((..((......(((.((....)).)))...))..).))))...(((.......(((.((....)).))).(((....)))))) ( -26.20)
>DroEre_CAF1 146681 105 - 1
UCUAGACAACCCGACCGACCAUCUAUCAAAUGAGCAGUUGGAAAAGUGUGGGGACGGCAUGAAGACCCAUAUGAAAACCGGGAAACCUGUUAUACGAGAGCAGGG
.........((((.(((((..((........))...)))))....(((((((.............)))))))......))))...((((((.......)))))). ( -29.82)
>DroYak_CAF1 155923 101 - 1
UCAAGACAACCCG----AACAUCUAUCAAAUGAGCAGUUGGAAAAGUGUGGGGACGGCAUGAAAACCCAUAUGAAAACCGGGAAACCUGUUAUAUGAGAGCAGGG
.........((((----..((.((.((....))..)).)).....(((((((.............)))))))......))))...((((((.......)))))). ( -24.62)
>consensus
UCAAGACAACCCG____ACCAUCUAUCAAAUGAGCAGUUGGAAAAGUGUGGGGACGGCAUGGAAACCCAAAUGAAAACCGGGAAACCUGUUAUGCGAGAGCAGGG
.........((((.....(((.((.((....))..)).))).......((((.............)))).........))))...((((((.......)))))). (-21.72 = -21.92 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:54 2006