Locus 6115

Sequence ID 2L_DroMel_CAF1
Location 17,116,287 – 17,116,400
Length 113
Max. P 0.985229
window9740 window9741

overview

Window 0

Location 17,116,287 – 17,116,400
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.88
Mean single sequence MFE -20.94
Consensus MFE -20.08
Energy contribution -20.04
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -1.54
Structure conservation index 0.96
SVM decision value 2.00
SVM RNA-class probability 0.985229
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17116287 113 + 22407834
AACAACAGGAAAACCAAAAGAGUGAAAGAGCGAA-AAAAAGUUUUGAAAUGAAAAAGCAGUCAGCAUAUGAAAUGAGUUUAUUACUCAAAAUGCUCCGCUCCGUGUUUAU------AUGU
...((((((....))....(((((...(((((..-.....(((((........)))))..(((.....)))..(((((.....)))))...))))))))))..))))...------.... ( -20.50)
>DroSec_CAF1 80090 114 + 1
AACAACAGGAAAACCAAAAGAGUGAAAGAGCGAGAAAAAAGUUUUGAAAUGAAAAAGCAGUCAGCAUAUGAAAUGAGUUUAUUACUCAAAAUGCUCCGCUCCGUGUUUAU------AUGU
...((((((....))....(((((...(((((........(((((........)))))..(((.....)))..(((((.....)))))...))))))))))..))))...------.... ( -20.50)
>DroSim_CAF1 95752 114 + 1
AACAACAGGAAAACCAAAAGAGUGAAAGAGCGAAAAAAAAGUUUUGAAAUGAAAAAGCAGUCAGCAUAUGAAAUGAGUUUAUUACUCAAAAUGCUCCGCUCCGUGUUUAU------AUGU
...((((((....))....(((((...(((((........(((((........)))))..(((.....)))..(((((.....)))))...))))))))))..))))...------.... ( -20.50)
>DroEre_CAF1 82187 120 + 1
AACAACAGGAAAACCAAAACAGUGAAAGAGCGAAAAAAAAGUUUUGAAAUGAAAAAGCAGUCAGCAUAUGAAAUGAGUUUAUUACUCAAAAUGCUCCACUCCGUGUUUAUACGAGCAUGU
.......((....)).....((((...(((((........(((((........)))))..(((.....)))..(((((.....)))))...))))))))).(((((((....))))))). ( -21.30)
>DroYak_CAF1 82138 116 + 1
AACAACAGGAAAACCAAUAGAGUGAAAGAGCGAAA--AAAGUUUUGAAAUGAAAAAGCAGUCAGCAUAUGAAAUGAGUUUAUUACUCAAAAUGCUCCACUCGCUGUUUAUACA--UAUGU
((((.(.((....))....(((((...(((((...--...(((((........)))))..(((.....)))..(((((.....)))))...))))))))))).))))......--..... ( -21.90)
>consensus
AACAACAGGAAAACCAAAAGAGUGAAAGAGCGAAAAAAAAGUUUUGAAAUGAAAAAGCAGUCAGCAUAUGAAAUGAGUUUAUUACUCAAAAUGCUCCGCUCCGUGUUUAU______AUGU
...((((((....))....(((((...(((((........(((((........)))))..(((.....)))..(((((.....)))))...))))))))))..))))............. (-20.08 = -20.04 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,116,287 – 17,116,400
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.88
Mean single sequence MFE -19.99
Consensus MFE -17.52
Energy contribution -17.48
Covariance contribution -0.04
Combinations/Pair 1.04
Mean z-score -1.24
Structure conservation index 0.88
SVM decision value 0.21
SVM RNA-class probability 0.633818
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17116287 113 - 22407834
ACAU------AUAAACACGGAGCGGAGCAUUUUGAGUAAUAAACUCAUUUCAUAUGCUGACUGCUUUUUCAUUUCAAAACUUUUU-UUCGCUCUUUCACUCUUUUGGUUUUCCUGUUGUU
....------...((((.((((((((((((..(((((.....)))))......))))(((........)))..............-))))))))...........((....))))))... ( -19.30)
>DroSec_CAF1 80090 114 - 1
ACAU------AUAAACACGGAGCGGAGCAUUUUGAGUAAUAAACUCAUUUCAUAUGCUGACUGCUUUUUCAUUUCAAAACUUUUUUCUCGCUCUUUCACUCUUUUGGUUUUCCUGUUGUU
....------...((((.((((((((((((..(((((.....)))))......)))))((........)).................)))))))...........((....))))))... ( -18.60)
>DroSim_CAF1 95752 114 - 1
ACAU------AUAAACACGGAGCGGAGCAUUUUGAGUAAUAAACUCAUUUCAUAUGCUGACUGCUUUUUCAUUUCAAAACUUUUUUUUCGCUCUUUCACUCUUUUGGUUUUCCUGUUGUU
....------...((((.((((((((((((..(((((.....)))))......))))(((........)))...............))))))))...........((....))))))... ( -19.30)
>DroEre_CAF1 82187 120 - 1
ACAUGCUCGUAUAAACACGGAGUGGAGCAUUUUGAGUAAUAAACUCAUUUCAUAUGCUGACUGCUUUUUCAUUUCAAAACUUUUUUUUCGCUCUUUCACUGUUUUGGUUUUCCUGUUGUU
.............((((.((((..((((((..(((((.....)))))......)))))..)..).........(((((((....................)))))))...)))))))... ( -19.75)
>DroYak_CAF1 82138 116 - 1
ACAUA--UGUAUAAACAGCGAGUGGAGCAUUUUGAGUAAUAAACUCAUUUCAUAUGCUGACUGCUUUUUCAUUUCAAAACUUU--UUUCGCUCUUUCACUCUAUUGGUUUUCCUGUUGUU
.....--......(((((((((((((((....(((((.....)))))........((.....))...................--....))))...)))))....((....)).)))))) ( -23.00)
>consensus
ACAU______AUAAACACGGAGCGGAGCAUUUUGAGUAAUAAACUCAUUUCAUAUGCUGACUGCUUUUUCAUUUCAAAACUUUUUUUUCGCUCUUUCACUCUUUUGGUUUUCCUGUUGUU
.............((((.((((((((((((..(((((.....)))))......)))))((........)).................)))))))...........((....))))))... (-17.52 = -17.48 +  -0.04)

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 12:02:17 2006