Locus 8198

Sequence ID X_DroMel_CAF1
Location 20,372,690 – 20,372,792
Length 102
Max. P 0.500000
window13474

overview

Window 4

Location 20,372,690 – 20,372,792
Length 102
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 82.05
Mean single sequence MFE -35.88
Consensus MFE -24.61
Energy contribution -25.68
Covariance contribution 1.06
Combinations/Pair 1.14
Mean z-score -1.51
Structure conservation index 0.69
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20372690 102 + 22224390
G---GGGGGGUUAAGAAUGGUCAGGGGUGGCAAAAAAUGAGGGGCCACUGUAGGGUUAAGUAAGGGGAACCCCCGACAACGAUCCUCUUUAUUCUGCGGACUGUU
.---.((.((((.(((((((..(((((((((............))))))..........((..(((....)))..))......)))..)))))))...)))).)) ( -28.50)
>DroSec_CAF1 55220 101 + 1
G---GAAUGGUCAGGGGUGGUCAGGGGUGGCACAAAAUGAGGGGCCACUGUAGGGUUAAGUG-GGGGAACCCCCGACAAAGAUCCUCGUGAUUCUGCGGACUGUU
.---.(((((((.(.((.(((((.(((((((.(........).))))))..((((((...((-(((....))))).....))))))).))))))).).))))))) ( -36.70)
>DroEre_CAF1 19663 104 + 1
UAAAAGGGACUUAAGAAUGGUCAGGGCUGGCUCUAAAUGAGGGGCCACUCUAGGGUUAAGUG-GGGGAACCCCCGAUAACGAUCCUCGUGAUUCUGCGGACUGUU
...............(((((((((((.(((((((......)))))))))))((((((...((-(((....))))).....))))))(((......)))))))))) ( -35.50)
>DroYak_CAF1 10013 103 + 1
GAAA-AGGACCUAGCAGCGGUCAGGGGUGGCUCCAAAUGAGGGGCCACUGUAGGGUUAAGUG-GGGGCAGCACCCACAACGAUCCUCGGGAUUCUGCGGACUGUU
....-..........(((((((...(((((((((......)))))))))((((((((..(((-((.......)))))..((.....)).)))))))).))))))) ( -42.80)
>consensus
G___GAGGACUUAAGAAUGGUCAGGGGUGGCACAAAAUGAGGGGCCACUGUAGGGUUAAGUG_GGGGAACCCCCGACAACGAUCCUCGUGAUUCUGCGGACUGUU
...............(((((((.(((((((((((......)))))))))..((((((......((((...))))......)))))).......))...))))))) (-24.61 = -25.68 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:15 2006