Locus 5272

Sequence ID 2L_DroMel_CAF1
Location 14,866,190 – 14,866,281
Length 91
Max. P 0.999845
window8389 window8390

overview

Window 9

Location 14,866,190 – 14,866,281
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 92.36
Mean single sequence MFE -26.20
Consensus MFE -22.74
Energy contribution -23.18
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -2.29
Structure conservation index 0.87
SVM decision value 2.90
SVM RNA-class probability 0.997636
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14866190 91 + 22407834
AGCAAUGAGUCAACUCAUUGUUGCUGUCGUACCCACAUUAUUUACAACUGUAAUUGCAGGUGCAGUUCGUAGGUAGGCAUUUUUUUUUUUG
(((((((((....)))))))))..((((((....))..((((((((((((((........))))))).)))))))))))............ ( -24.40)
>DroSec_CAF1 26047 88 + 1
AGCAAUGAGUCAACUCAUUGUUGCUGUCGUACCCACAUUAUUUACAACUGUAAUUGCAGGUGCAGCUCGUAGGUAGGCAUUUU---UGUUG
(((((((((....)))))))))..((((.((((.((.....((((....))))((((....))))...)).))))))))....---..... ( -23.70)
>DroSim_CAF1 25566 88 + 1
AGCAAUGAGUCAACUCAUUGUUGCUGUCGUACCCACAUUAUUUACAACUGUAAUUUCAGGUGCUGUUCGUAGGUAGGCAUUUU---UGUUG
(((((((((....)))))))))..((((.((((.((...((...((.(((......))).))..))..)).))))))))....---..... ( -20.90)
>DroEre_CAF1 25444 86 + 1
AGCAAUGAGUCAACUCAUUGUUGCUGCCGUGCCCACAUUAUUUACAACUGUAAUUGCAGGUGCAGUUCGCAGGUAGGCAGU-----GGUUG
(((((((((....)))))))))((((((((....))...........((((((((((....)))))).))))...))))))-----..... ( -31.50)
>DroYak_CAF1 25199 86 + 1
AGCAAUGAGUCAACUCAUUGUUGCUGUCGUGCCCACAUUAUUUACAACUGUAAUUGCAGGUGCAGUUCGUAGGUAGGCAUG-----GGUUG
(((((((((....)))))))))....(((((((.....((((((((((((((........))))))).)))))))))))))-----).... ( -30.50)
>consensus
AGCAAUGAGUCAACUCAUUGUUGCUGUCGUACCCACAUUAUUUACAACUGUAAUUGCAGGUGCAGUUCGUAGGUAGGCAUUUU___UGUUG
(((((((((....)))))))))..((((((....))..((((((((((((((........))))))).)))))))))))............ (-22.74 = -23.18 +   0.44)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,866,190 – 14,866,281
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 92.36
Mean single sequence MFE -22.93
Consensus MFE -20.70
Energy contribution -20.66
Covariance contribution -0.04
Combinations/Pair 1.05
Mean z-score -2.69
Structure conservation index 0.90
SVM decision value 4.24
SVM RNA-class probability 0.999845
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14866190 91 - 22407834
CAAAAAAAAAAAUGCCUACCUACGAACUGCACCUGCAAUUACAGUUGUAAAUAAUGUGGGUACGACAGCAACAAUGAGUUGACUCAUUGCU
............(((.((((((((...((((.(((......))).)))).....)))))))).....))).(((((((....))))))).. ( -22.50)
>DroSec_CAF1 26047 88 - 1
CAACA---AAAAUGCCUACCUACGAGCUGCACCUGCAAUUACAGUUGUAAAUAAUGUGGGUACGACAGCAACAAUGAGUUGACUCAUUGCU
.....---....(((.((((((((...((((.(((......))).)))).....)))))))).....))).(((((((....))))))).. ( -22.50)
>DroSim_CAF1 25566 88 - 1
CAACA---AAAAUGCCUACCUACGAACAGCACCUGAAAUUACAGUUGUAAAUAAUGUGGGUACGACAGCAACAAUGAGUUGACUCAUUGCU
.....---....(((.((((((((....(((.(((......))).)))......)))))))).....))).(((((((....))))))).. ( -21.30)
>DroEre_CAF1 25444 86 - 1
CAACC-----ACUGCCUACCUGCGAACUGCACCUGCAAUUACAGUUGUAAAUAAUGUGGGCACGGCAGCAACAAUGAGUUGACUCAUUGCU
.....-----.(((((..((..((...((((.(((......))).)))).....))..))...)))))...(((((((....))))))).. ( -26.20)
>DroYak_CAF1 25199 86 - 1
CAACC-----CAUGCCUACCUACGAACUGCACCUGCAAUUACAGUUGUAAAUAAUGUGGGCACGACAGCAACAAUGAGUUGACUCAUUGCU
.....-----..(((((((........((((.(((......))).))))......))))))).........(((((((....))))))).. ( -22.14)
>consensus
CAACA___AAAAUGCCUACCUACGAACUGCACCUGCAAUUACAGUUGUAAAUAAUGUGGGUACGACAGCAACAAUGAGUUGACUCAUUGCU
............(((((((........((((.(((......))).))))......))))))).........(((((((....))))))).. (-20.70 = -20.66 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:15 2006