Locus 4672

Sequence ID 2L_DroMel_CAF1
Location 13,417,350 – 13,417,446
Length 96
Max. P 0.534384
window7385

overview

Window 5

Location 13,417,350 – 13,417,446
Length 96
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 86.76
Mean single sequence MFE -19.86
Consensus MFE -17.10
Energy contribution -17.55
Covariance contribution 0.45
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.86
SVM decision value 0.00
SVM RNA-class probability 0.534384
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13417350 96 - 22407834
GCAGUUAAAAGGCAGUUUUAUAUUCAUUACAAGUCAAGCUGCAGGGCCAAAACAGGAGGAACAACAA-CCGGCGGUAGAAACCACCAACAAAUGGCA
...........(((((((.((...........)).)))))))...((((........((........-))((.(((....))).))......)))). ( -20.20)
>DroSec_CAF1 24833 97 - 1
GCAGUUAAAAGGCAGUUUUAUAUUCAUUACAAGUCAAGCUGCAGGGCCAAAACAACAGGAACAACAAGCCGGUGGGAGAAACCACCAACAAAUGGCA
...........(((((((.((...........)).)))))))...((((........((.........))(((((......)))))......)))). ( -23.40)
>DroSim_CAF1 25584 97 - 1
GCAGUUAAAAGGCAGUUUUAUAUUCAUUACAAGUCAAGCUGCAGGGCCAAAACAACAGGAACAACAAGCCGGUGGGAGAAACCACCAACAAAUGGCA
...........(((((((.((...........)).)))))))...((((........((.........))(((((......)))))......)))). ( -23.40)
>DroEre_CAF1 28572 95 - 1
GCAGUUAAAAGGCAGUUUUAUAUUCAUUACAAGUCAAGCUGCAGGGCCAAAACAACAGGAACAACAAA-CGGUGGGGG-GACCACCAACAAAUGGCA
...........(((((((.((...........)).)))))))...((((........(......)...-.(((((...-..)))))......)))). ( -22.00)
>DroYak_CAF1 24956 73 - 1
GCAGUUAAAAGGCAGUUUUAUAUUCAUUACAAGUCCAGCUGCAGGGCCAAAACAACAGGAACAAC------------------------AAAUGGCA
((((((....(((...................))).))))))...((((................------------------------...)))). ( -10.32)
>consensus
GCAGUUAAAAGGCAGUUUUAUAUUCAUUACAAGUCAAGCUGCAGGGCCAAAACAACAGGAACAACAA_CCGGUGGGAGAAACCACCAACAAAUGGCA
((((((....(((...................))).))))))...((((........(......).....(((((......)))))......)))). (-17.10 = -17.55 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:13 2006