Locus 1830

Sequence ID X_DroMel_CAF1
Location 5,061,208 – 5,061,315
Length 107
Max. P 0.982919
window2980 window2981

overview

Window 0

Location 5,061,208 – 5,061,315
Length 107
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 94.92
Mean single sequence MFE -27.87
Consensus MFE -26.30
Energy contribution -26.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.96
Structure conservation index 0.94
SVM decision value 1.93
SVM RNA-class probability 0.982919
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5061208 107 + 22224390
AAGCAAACAGCAAUAAACGAGUUUUGGCCAAACAAACUGUCGUUUUUGGCCAGCGGAGAAACAGAGGGAAAACUGUAAGAGGCCGAAACUCAAAGGCCAACAAUGCG
.........(((......(((((((((((.......((((..(((((.(....).)))))))))((......))......)))))))))))...(.....)..))). ( -28.40)
>DroSec_CAF1 19129 101 + 1
AAGCAAACAGCAAUAAACGAGUUUUGGCCAAACAAACUGUCGUU-UUGGCCAGCGGAGAAACAGAGGGAAAACUGUAAGAGGCCGAAACUCAAAAGCCAACA-----
..((.....)).......(((((((((((.......((((..((-(((.....)))))..))))((......))......)))))))))))...........----- ( -27.90)
>DroSim_CAF1 19420 101 + 1
AAGCAAACAGCAAUAAACGAGUUUUGGCCAAACAAACUGUCGUU-UUGGCCAGCGGUGAAACAGAGGGAAAACUGUAAGAGGCCGAAACUCAAAAGCCAACA-----
..((.....)).......(((((((((((......(((((.((.-...))..)))))...((((........))))....)))))))))))...........----- ( -27.30)
>consensus
AAGCAAACAGCAAUAAACGAGUUUUGGCCAAACAAACUGUCGUU_UUGGCCAGCGGAGAAACAGAGGGAAAACUGUAAGAGGCCGAAACUCAAAAGCCAACA_____
..((.....)).......(((((((((((.......((((((....))).))).......((((........))))....)))))))))))................ (-26.30 = -26.30 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 5,061,208 – 5,061,315
Length 107
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 94.92
Mean single sequence MFE -25.93
Consensus MFE -24.70
Energy contribution -24.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.95
SVM decision value 0.65
SVM RNA-class probability 0.810605
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5061208 107 - 22224390
CGCAUUGUUGGCCUUUGAGUUUCGGCCUCUUACAGUUUUCCCUCUGUUUCUCCGCUGGCCAAAAACGACAGUUUGUUUGGCCAAAACUCGUUUAUUGCUGUUUGCUU
.(((....((((...((((((((((......((((........))))....))).(((((((((((....)))..)))))))))))))))......))))..))).. ( -27.80)
>DroSec_CAF1 19129 101 - 1
-----UGUUGGCUUUUGAGUUUCGGCCUCUUACAGUUUUCCCUCUGUUUCUCCGCUGGCCAA-AACGACAGUUUGUUUGGCCAAAACUCGUUUAUUGCUGUUUGCUU
-----....(((...((((((((((......((((........))))....))).(((((((-(.(((....))))))))))))))))))......)))........ ( -25.00)
>DroSim_CAF1 19420 101 - 1
-----UGUUGGCUUUUGAGUUUCGGCCUCUUACAGUUUUCCCUCUGUUUCACCGCUGGCCAA-AACGACAGUUUGUUUGGCCAAAACUCGUUUAUUGCUGUUUGCUU
-----....(((...((((((((((......((((........))))....))).(((((((-(.(((....))))))))))))))))))......)))........ ( -25.00)
>consensus
_____UGUUGGCUUUUGAGUUUCGGCCUCUUACAGUUUUCCCUCUGUUUCUCCGCUGGCCAA_AACGACAGUUUGUUUGGCCAAAACUCGUUUAUUGCUGUUUGCUU
.........(((...((((((((((......((((........))))....))).(((((((.(((....)))...))))))))))))))......)))........ (-24.70 = -24.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:48 2006