Locus 6152

Sequence ID 2L_DroMel_CAF1
Location 17,150,889 – 17,151,013
Length 124
Max. P 0.997949
window9831 window9832 window9833

overview

Window 1

Location 17,150,889 – 17,150,981
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 96.30
Mean single sequence MFE -26.70
Consensus MFE -22.98
Energy contribution -22.70
Covariance contribution -0.28
Combinations/Pair 1.13
Mean z-score -2.69
Structure conservation index 0.86
SVM decision value 2.97
SVM RNA-class probability 0.997949
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17150889 92 + 22407834
AUUCCGGCGAAAAGGGGACGAAACGCCAUCAAGGAACUCUUUAUGGUGAUAUGGUGAGAAUGGCGGAGUUGGAACCCUGAAAAAAGAGGGGU
.(((((((.....(....)....((((((.......(((.(((((....))))).))).))))))..)))))))((((........)))).. ( -26.30)
>DroSec_CAF1 111772 92 + 1
AUUCCGGCGAAAAGGGGACGAAACGCCAUCAAGGAACUCUUUAUGGUGAUAUGGUGAGAAUGGCGGAGCUGGAACCCUGAAAAAAGAGGGGU
.(((((((.....(....)....((((((.......(((.(((((....))))).))).))))))..)))))))((((........)))).. ( -28.80)
>DroSim_CAF1 123968 92 + 1
AUUCCGGCGAAAAGGGGACGAAACGCCAUCAAGGAACUCUUUAUGGUGAUAUGGUGAGAAUGGCGGAGCUGGAACCCUGAAAAAAGAGGGGU
.(((((((.....(....)....((((((.......(((.(((((....))))).))).))))))..)))))))((((........)))).. ( -28.80)
>DroEre_CAF1 109186 90 + 1
AUUCCGGCGAA-AGGGGAAGA-ACACCAUCAAGGAACUCUUUAUGGUGAUAUGGUGAGAAUGGCGGAGCUGGAAGCCUGAAAAAAGAGGGGU
.(((((((...-.........-.((((((.((((....)))))))))).....((.......))...))))))).(((........)))... ( -22.00)
>DroYak_CAF1 111739 92 + 1
AUUCCGGCGAAAAGGGGAAGAAACGCCAUCAAGGAACUCUUUAUGGUGAUAUGGUGAGAACGGCGGAGCUGGAACCCCGAAAAAAGAGGGGU
..((((((...............((((((.((((....))))))))))...((.((....)).))..))))))(((((.........))))) ( -27.60)
>consensus
AUUCCGGCGAAAAGGGGACGAAACGCCAUCAAGGAACUCUUUAUGGUGAUAUGGUGAGAAUGGCGGAGCUGGAACCCUGAAAAAAGAGGGGU
..((((((...............((((((.((((....)))))))))).....((.......))...))))))(((((.........))))) (-22.98 = -22.70 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,150,889 – 17,150,981
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 96.30
Mean single sequence MFE -16.11
Consensus MFE -13.79
Energy contribution -13.51
Covariance contribution -0.28
Combinations/Pair 1.18
Mean z-score -1.30
Structure conservation index 0.86
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17150889 92 - 22407834
ACCCCUCUUUUUUCAGGGUUCCAACUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCGUCCCCUUUUCGCCGGAAU
..((((........))))((((.....((((((((((................)))......)))))))...((.........))..)))). ( -14.99)
>DroSec_CAF1 111772 92 - 1
ACCCCUCUUUUUUCAGGGUUCCAGCUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCGUCCCCUUUUCGCCGGAAU
..((((........))))((((.((..((((((((((................)))......)))))))....(.........))).)))). ( -16.59)
>DroSim_CAF1 123968 92 - 1
ACCCCUCUUUUUUCAGGGUUCCAGCUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCGUCCCCUUUUCGCCGGAAU
..((((........))))((((.((..((((((((((................)))......)))))))....(.........))).)))). ( -16.59)
>DroEre_CAF1 109186 90 - 1
ACCCCUCUUUUUUCAGGCUUCCAGCUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGUGU-UCUUCCCCU-UUCGCCGGAAU
................((.....))((((...............((((((.(((.....))).)))))).-.........-.....)))).. ( -14.21)
>DroYak_CAF1 111739 92 - 1
ACCCCUCUUUUUUCGGGGUUCCAGCUCCGCCGUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCUUCCCCUUUUCGCCGGAAU
(((((.........)))))......((((.((............(.((((.(((.....))).)))).)..............)).)))).. ( -18.17)
>consensus
ACCCCUCUUUUUUCAGGGUUCCAGCUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCGUCCCCUUUUCGCCGGAAU
...((.......((((((....(((((..........................))))))))))).((((..............))))))... (-13.79 = -13.51 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,150,901 – 17,151,013
Length 112
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 97.32
Mean single sequence MFE -22.27
Consensus MFE -19.86
Energy contribution -19.58
Covariance contribution -0.28
Combinations/Pair 1.12
Mean z-score -1.66
Structure conservation index 0.89
SVM decision value 1.22
SVM RNA-class probability 0.932259
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17150901 112 - 22407834
GGGUUUAAUUUGUGCAACGCCCCCACAACAUAACCCCUCUUUUUUCAGGGUUCCAACUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCGUCCCCU
(((((....(((((.........)))))...)))))..........((((..(......((((((((((................)))......)))))))....)..)))) ( -22.09)
>DroSec_CAF1 111784 112 - 1
GGGUUUAAUUUGUGCAACGCCCCCACAACAUAACCCCUCUUUUUUCAGGGUUCCAGCUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCGUCCCCU
(((((....(((((.........)))))...)))))..........((((..(......((((((((((................)))......)))))))....)..)))) ( -22.09)
>DroSim_CAF1 123980 112 - 1
GGGUUUAAUUUGUGCAACGCCCCCACAACAUAACCCCUCUUUUUUCAGGGUUCCAGCUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCGUCCCCU
(((((....(((((.........)))))...)))))..........((((..(......((((((((((................)))......)))))))....)..)))) ( -22.09)
>DroEre_CAF1 109197 111 - 1
GGGUUUAAUUUGUGCAACGCCCCCACAACAUAACCCCUCUUUUUUCAGGCUUCCAGCUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGUGU-UCUUCCCCU
(((((....(((((.........)))))...)))))...........(((..........))).............((((((.(((.....))).)))))).-......... ( -20.90)
>DroYak_CAF1 111751 112 - 1
GGGUUUAAUUUGUGCAACGCCCCCACAACAUAACCCCUCUUUUUUCGGGGUUCCAGCUCCGCCGUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCUUCCCCU
(((((....(((((.........)))))...)))))..........((((....((...((((((((((................)))......)))))))...)).)))). ( -24.19)
>consensus
GGGUUUAAUUUGUGCAACGCCCCCACAACAUAACCCCUCUUUUUUCAGGGUUCCAGCUCCGCCAUUCUCACCAUAUCACCAUAAAGAGUUCCUUGAUGGCGUUUCGUCCCCU
(((((....(((((.........)))))...)))))..........((((.........((((((((((................)))......))))))).......)))) (-19.86 = -19.58 +  -0.28)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:49 2006