Locus 5881

Sequence ID X_DroMel_CAF1
Location 15,147,566 – 15,147,707
Length 141
Max. P 0.996379
window9548 window9549 window9550 window9551

overview

Window 8

Location 15,147,566 – 15,147,667
Length 101
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 94.41
Mean single sequence MFE -31.57
Consensus MFE -27.04
Energy contribution -28.35
Covariance contribution 1.31
Combinations/Pair 1.03
Mean z-score -3.42
Structure conservation index 0.86
SVM decision value 1.56
SVM RNA-class probability 0.963911
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15147566 101 + 22224390
UGCAACUGUUUGCAUUGCUUUUGCCAAUGCAAUUGCAAUUGCAAUUGCAAUUGCUCCUGCACUUUGUUUUGCACUCGCCAAUGUGUGU----GUGUUUUUUGCGA
((((.....(((((((((....).))))))))..((((((((....))))))))...))))..((((...((((.(((......))).----)))).....)))) ( -31.60)
>DroSec_CAF1 58588 105 + 1
UGCAACUGUUUGCAUUGCUUUUGCCAAUGCAAUUGCCAUUGCAAUUGCAAUUGCUCCUGCACUUCGUUUUGCACUCGCCAAUGUGUGUGUGUGUGUAUUUUGCGA
(((((....))))).(((....((...(((((((((....)))))))))...))....)))..((((..(((((.(((((.....)).))).)))))....)))) ( -32.20)
>DroSim_CAF1 50056 105 + 1
UGCAACUGUUUGCAUUGCUUUUGCCAAUGCAAUUGCCAUUGCAAUUGCAAUUGCUCCUGCACUUCGUUUUGCACUCGCCAAUGUGUGUGUGUGUGUAUUUUGCGA
(((((....))))).(((....((...(((((((((....)))))))))...))....)))..((((..(((((.(((((.....)).))).)))))....)))) ( -32.20)
>DroEre_CAF1 65108 101 + 1
UGCAACUGUUUGCAUUGCUUUUGCCAAUGCAAUGGCAAUUGCAAUUGCAAUUGCUCCUGCACUUCGUUUUGCACUCGCCAAUGUCUGU----GUGUAUUUUUCGA
((((.....(((((((((....).)))))))).(((((((((....)))))))))..))))..(((...(((((.((........)).----))))).....))) ( -30.30)
>consensus
UGCAACUGUUUGCAUUGCUUUUGCCAAUGCAAUUGCAAUUGCAAUUGCAAUUGCUCCUGCACUUCGUUUUGCACUCGCCAAUGUGUGU____GUGUAUUUUGCGA
((((.....(((((((((....).))))))))..((((((((....))))))))...))))..((((..(((((.(((........)))...)))))....)))) (-27.04 = -28.35 +   1.31)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,147,566 – 15,147,667
Length 101
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 94.41
Mean single sequence MFE -27.68
Consensus MFE -26.83
Energy contribution -27.33
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -3.04
Structure conservation index 0.97
SVM decision value 2.69
SVM RNA-class probability 0.996379
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15147566 101 - 22224390
UCGCAAAAAACAC----ACACACAUUGGCGAGUGCAAAACAAAGUGCAGGAGCAAUUGCAAUUGCAAUUGCAAUUGCAUUGGCAAAAGCAAUGCAAACAGUUGCA
..((((.......----.....(((((.(...(((.......(((((((..((((((((....))))))))..))))))).)))...)))))).......)))). ( -29.61)
>DroSec_CAF1 58588 105 - 1
UCGCAAAAUACACACACACACACAUUGGCGAGUGCAAAACGAAGUGCAGGAGCAAUUGCAAUUGCAAUGGCAAUUGCAUUGGCAAAAGCAAUGCAAACAGUUGCA
((((.......................)))).((((........))))...((...(((((((((....)))))))))...))....(((((.......))))). ( -26.10)
>DroSim_CAF1 50056 105 - 1
UCGCAAAAUACACACACACACACAUUGGCGAGUGCAAAACGAAGUGCAGGAGCAAUUGCAAUUGCAAUGGCAAUUGCAUUGGCAAAAGCAAUGCAAACAGUUGCA
((((.......................)))).((((........))))...((...(((((((((....)))))))))...))....(((((.......))))). ( -26.10)
>DroEre_CAF1 65108 101 - 1
UCGAAAAAUACAC----ACAGACAUUGGCGAGUGCAAAACGAAGUGCAGGAGCAAUUGCAAUUGCAAUUGCCAUUGCAUUGGCAAAAGCAAUGCAAACAGUUGCA
.............----..........((...(((.......(((((((..((((((((....))))))))..))))))).)))...))..(((((....))))) ( -28.90)
>consensus
UCGCAAAAUACAC____ACACACAUUGGCGAGUGCAAAACGAAGUGCAGGAGCAAUUGCAAUUGCAAUGGCAAUUGCAUUGGCAAAAGCAAUGCAAACAGUUGCA
...........................((...(((.......(((((((..((((((((....))))))))..))))))).)))...))..(((((....))))) (-26.83 = -27.33 +   0.50)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,147,606 – 15,147,707
Length 101
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 93.61
Mean single sequence MFE -27.35
Consensus MFE -23.14
Energy contribution -23.95
Covariance contribution 0.81
Combinations/Pair 1.04
Mean z-score -2.99
Structure conservation index 0.85
SVM decision value 1.60
SVM RNA-class probability 0.966657
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15147606 101 + 22224390
GCAAUUGCAAUUGCUCCUGCACUUUGUUUUGCACUCGCCAAUGUGUGU----GUGUUUUUUGCGAACUUGUUUUGCAAUUGCGUUUUAAAAUAAAUUACAUCAGU
((((((((((.(((....))).(((((...((((.(((......))).----)))).....)))))......))))))))))....................... ( -25.70)
>DroSec_CAF1 58628 101 + 1
GCAAUUGCAAUUGCUCCUGCACUUCGUUUUGCACUCGCCAAUGUGUGUGUGUGUGUAUUUUGCGAACUUGUUUUGCAAUUGCGUUUUAAAAUAAAUUACAU----
((((((((((.(((....))).(((((..(((((.(((((.....)).))).)))))....)))))......))))))))))...................---- ( -30.00)
>DroSim_CAF1 50096 105 + 1
GCAAUUGCAAUUGCUCCUGCACUUCGUUUUGCACUCGCCAAUGUGUGUGUGUGUGUAUUUUGCGAACUUGUUUUGCAAUUGCGUUUUAAAAUAAAUUACAUCAGU
((((((((((.(((....))).(((((..(((((.(((((.....)).))).)))))....)))))......))))))))))....................... ( -30.00)
>DroEre_CAF1 65148 101 + 1
GCAAUUGCAAUUGCUCCUGCACUUCGUUUUGCACUCGCCAAUGUCUGU----GUGUAUUUUUCGAACUUGUUUUGCAAUUGCGUUUUAAAAUAAAUUACAUCAGU
((((((((((.(((....))).((((...(((((.((........)).----))))).....))))......))))))))))....................... ( -23.70)
>consensus
GCAAUUGCAAUUGCUCCUGCACUUCGUUUUGCACUCGCCAAUGUGUGU____GUGUAUUUUGCGAACUUGUUUUGCAAUUGCGUUUUAAAAUAAAUUACAUCAGU
((((((((((.(((....))).(((((..(((((.(((........)))...)))))....)))))......))))))))))....................... (-23.14 = -23.95 +   0.81)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,147,606 – 15,147,707
Length 101
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 93.61
Mean single sequence MFE -19.21
Consensus MFE -17.65
Energy contribution -17.90
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.33
Structure conservation index 0.92
SVM decision value -0.03
SVM RNA-class probability 0.516900
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15147606 101 - 22224390
ACUGAUGUAAUUUAUUUUAAAACGCAAUUGCAAAACAAGUUCGCAAAAAACAC----ACACACAUUGGCGAGUGCAAAACAAAGUGCAGGAGCAAUUGCAAUUGC
.......................((((((((........(((((.........----..........)))))((((........))))...))))))))...... ( -19.31)
>DroSec_CAF1 58628 101 - 1
----AUGUAAUUUAUUUUAAAACGCAAUUGCAAAACAAGUUCGCAAAAUACACACACACACACAUUGGCGAGUGCAAAACGAAGUGCAGGAGCAAUUGCAAUUGC
----...................((((((((........(((((.......................)))))((((........))))...))))))))...... ( -19.10)
>DroSim_CAF1 50096 105 - 1
ACUGAUGUAAUUUAUUUUAAAACGCAAUUGCAAAACAAGUUCGCAAAAUACACACACACACACAUUGGCGAGUGCAAAACGAAGUGCAGGAGCAAUUGCAAUUGC
.......................((((((((........(((((.......................)))))((((........))))...))))))))...... ( -19.10)
>DroEre_CAF1 65148 101 - 1
ACUGAUGUAAUUUAUUUUAAAACGCAAUUGCAAAACAAGUUCGAAAAAUACAC----ACAGACAUUGGCGAGUGCAAAACGAAGUGCAGGAGCAAUUGCAAUUGC
.......................((((((((((..(((..((...........----...))..)))((...((((........))))...))..)))))))))) ( -19.34)
>consensus
ACUGAUGUAAUUUAUUUUAAAACGCAAUUGCAAAACAAGUUCGCAAAAUACAC____ACACACAUUGGCGAGUGCAAAACGAAGUGCAGGAGCAAUUGCAAUUGC
.......................((((((((........(((((.......................)))))((((........))))...))))))))...... (-17.65 = -17.90 +   0.25)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:45 2006