Locus 1953

Sequence ID 3L_DroMel_CAF1
Location 5,404,945 – 5,405,065
Length 120
Max. P 0.940501
window3057

overview

Window 7

Location 5,404,945 – 5,405,065
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -37.00
Consensus MFE -36.10
Energy contribution -35.67
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -2.16
Structure conservation index 0.98
SVM decision value 1.29
SVM RNA-class probability 0.940501
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5404945 120 + 23771897
AGCUGCUAUUGCUCCUCCAUCAACAUUUGCACUUCUUUAUUUUUAUUACCCGGCGUACUCUGCUGGGCUUUAAUGACUUCGUUAUGGUUGCCAUGGCGAGAAGUGGGGCUUCGAGUUGGU
..(.(((...(((((..((........)).(((((.......(((((((((((((.....)))))))...))))))..(((((((((...)))))))))))))))))))....))).).. ( -35.30)
>DroSim_CAF1 50776 120 + 1
AGCUGCUAUUGCUCCUCCAUCAACAUUUGCACUUCUUUAUUUUUAUUACCCGGCGUACUCCGCUGGGCUUUAAUGACUUCGUUAUGGUUGCCAUGGCGAGAAAUGGGGCUUCGAGUCGGU
.((((((...(((((...........................(((((((((((((.....)))))))...)))))).((((((((((...))))))))))....)))))....)).)))) ( -36.80)
>DroYak_CAF1 53981 120 + 1
AGCUGCUAUUGCCCCUCCAUCAACAUUUGCACUUCUUUAUUUUUAUUACCCGGCACACUCCGCUGGGCUUUAAUGACUUCGUUAUGGUUUCCAUGGCGAGAAAUGGGGCUUCGAGUCGGC
.((((((...(((((...........................((((((((((((.......))))))...)))))).((((((((((...))))))))))....)))))....)).)))) ( -38.90)
>consensus
AGCUGCUAUUGCUCCUCCAUCAACAUUUGCACUUCUUUAUUUUUAUUACCCGGCGUACUCCGCUGGGCUUUAAUGACUUCGUUAUGGUUGCCAUGGCGAGAAAUGGGGCUUCGAGUCGGU
.((((((...(((((...........................(((((((((((((.....)))))))...)))))).((((((((((...))))))))))....)))))....)).)))) (-36.10 = -35.67 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:58 2006