Locus 6571

Sequence ID X_DroMel_CAF1
Location 16,419,513 – 16,419,626
Length 113
Max. P 0.882383
window10733 window10734

overview

Window 3

Location 16,419,513 – 16,419,626
Length 113
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 95.28
Mean single sequence MFE -23.00
Consensus MFE -20.45
Energy contribution -20.57
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.47
Structure conservation index 0.89
SVM decision value 0.92
SVM RNA-class probability 0.882383
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16419513 113 + 22224390
AAAUUGGACAAACAAAUUUCAAAGAAACGCACAGAAAGAAACACAGUUUUUAUGAAACAAAUUGAUGUUUCAUAGAUAAAUAGUUUCUUAUCGUUUGGCAUAUAGAAUAUGCG
........(((((...((((...))))......(((((((((......(((((((((((......)))))))))))......))))))).)))))))((((((...)))))). ( -26.50)
>DroSec_CAF1 40150 113 + 1
AAAUUGGACAAACAAAUUUCAAAGAAACGCACAGAAAGAAACACAGUUUUUAUGAAACAAAUUCAUGUUUCAUAGAUAAAUAGUUUCUUAUCGUUUUUCAUGUAGAAUAUUCG
......((.((((...((((...))))......(((((((((......(((((((((((......)))))))))))......))))))).)))))).)).............. ( -20.50)
>DroSim_CAF1 36443 113 + 1
AAAUUGGACAAACAAAUUUCAAAGAAACGCACAGAAAGAAACAUAGUUUUUAUGAAGCAAACUGAUGUUUCAUAGAUAAAUAGUUUCUUAUCGUUUGGCAUGUAGAAUAUUCG
........(((((...((((...))))......(((((((((.((...(((((((((((......)))))))))))....))))))))).)))))))................ ( -22.00)
>consensus
AAAUUGGACAAACAAAUUUCAAAGAAACGCACAGAAAGAAACACAGUUUUUAUGAAACAAAUUGAUGUUUCAUAGAUAAAUAGUUUCUUAUCGUUUGGCAUGUAGAAUAUUCG
......(.(((((...((((...))))......(((((((((......(((((((((((......)))))))))))......))))))).))))))).).............. (-20.45 = -20.57 +   0.11)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 16,419,513 – 16,419,626
Length 113
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 95.28
Mean single sequence MFE -22.60
Consensus MFE -18.28
Energy contribution -18.72
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.43
Structure conservation index 0.81
SVM decision value 0.19
SVM RNA-class probability 0.625528
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16419513 113 - 22224390
CGCAUAUUCUAUAUGCCAAACGAUAAGAAACUAUUUAUCUAUGAAACAUCAAUUUGUUUCAUAAAAACUGUGUUUCUUUCUGUGCGUUUCUUUGAAAUUUGUUUGUCCAAUUU
.((((((...))))))(((((((.(((((((........(((((((((......)))))))))......(..(........)..))))))))......)))))))........ ( -24.70)
>DroSec_CAF1 40150 113 - 1
CGAAUAUUCUACAUGAAAAACGAUAAGAAACUAUUUAUCUAUGAAACAUGAAUUUGUUUCAUAAAAACUGUGUUUCUUUCUGUGCGUUUCUUUGAAAUUUGUUUGUCCAAUUU
((((((.....((.((((.(((..(((((((........(((((((((......)))))))))........)))))))..)))...))))..)).....))))))........ ( -23.39)
>DroSim_CAF1 36443 113 - 1
CGAAUAUUCUACAUGCCAAACGAUAAGAAACUAUUUAUCUAUGAAACAUCAGUUUGCUUCAUAAAAACUAUGUUUCUUUCUGUGCGUUUCUUUGAAAUUUGUUUGUCCAAUUU
................(((((((.((((((((((........(((((((.(((((.........)))))))))))).....))).)))))))......)))))))........ ( -19.72)
>consensus
CGAAUAUUCUACAUGCCAAACGAUAAGAAACUAUUUAUCUAUGAAACAUCAAUUUGUUUCAUAAAAACUGUGUUUCUUUCUGUGCGUUUCUUUGAAAUUUGUUUGUCCAAUUU
((((((.....((....(((((..(((((((........(((((((((......)))))))))........)))))))......)))))...)).....))))))........ (-18.28 = -18.72 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:12 2006