Locus 5475

Sequence ID X_DroMel_CAF1
Location 14,230,483 – 14,230,573
Length 90
Max. P 0.999884
window8882 window8883

overview

Window 2

Location 14,230,483 – 14,230,573
Length 90
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 85.96
Mean single sequence MFE -24.24
Consensus MFE -19.86
Energy contribution -19.90
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -1.90
Structure conservation index 0.82
SVM decision value 0.94
SVM RNA-class probability 0.886796
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14230483 90 + 22224390
UUUUUGCAUAGGAUUAAAAUAUCCUUUGGCAGUAUGCCACCAA--ACAUGGCGGCAACUAAAAGAAAAUUAAAAUCGAAUUCGGUGGGGGUG--------------------
...((((..(((((......)))))...))))..((((.(((.--...))).))))...........(((...((((....))))...))).-------------------- ( -22.40)
>DroSec_CAF1 139003 88 + 1
UUUUUGCAUAGGAUUAAAAUAUCCUUUGGCAGUAUGCCACCAA--AUGCGGCGGCAACCAAAAGAAAAUUAAAAUCGAAUUCGGUGGG--UG--------------------
...((((..(((((......)))))...))))..((((.((..--....)).))))(((..............((((....)))).))--).-------------------- ( -22.06)
>DroSim_CAF1 119140 88 + 1
UUUUUGCAUAGGAUUAAAAUAUCCUUUGGCAGUAUGCCACCAA--ACGCGGCGGCAACCAAAAGAAAAUUAAAAUCGAAUUCGGUGGG--UG--------------------
...((((..(((((......)))))...))))..((((.((..--....)).))))(((..............((((....)))).))--).-------------------- ( -22.06)
>DroEre_CAF1 126628 90 + 1
UUUUUGUAUAGGAUUAAAAUAUCCUUUGGCAGUGUGCCACCAAAAACACGGCGGCCACCGAAAGAAAAUUAAAAUCGAAUUCGGUGGG--UG--------------------
((((((...(((((......))))).((((.....)))).)))))).....((.((((((((.((.........))...)))))))).--))-------------------- ( -24.50)
>DroYak_CAF1 129319 108 + 1
UUUUUGCAUAGGAUUAAAAUAUCCUUUGGCAGUAUGCCACCAA--ACACGGCGGCAACGAAAAGAAAAUUAAAAUCGAAUUCGGUGUG--UGGGGUGUGUGGUGUGGGGUGU
...((((..(((((......)))))...))))((((((((((.--((((..((....))..............((((....)))))))--)....)).))))))))...... ( -30.20)
>consensus
UUUUUGCAUAGGAUUAAAAUAUCCUUUGGCAGUAUGCCACCAA__ACACGGCGGCAACCAAAAGAAAAUUAAAAUCGAAUUCGGUGGG__UG____________________
...((((..(((((......)))))...))))..((((.((........)).)))).................((((....))))........................... (-19.86 = -19.90 +   0.04)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,230,483 – 14,230,573
Length 90
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 85.96
Mean single sequence MFE -24.76
Consensus MFE -22.96
Energy contribution -23.60
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -3.51
Structure conservation index 0.93
SVM decision value 4.38
SVM RNA-class probability 0.999884
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14230483 90 - 22224390
--------------------CACCCCCACCGAAUUCGAUUUUAAUUUUCUUUUAGUUGCCGCCAUGU--UUGGUGGCAUACUGCCAAAGGAUAUUUUAAUCCUAUGCAAAAA
--------------------................((((..(((.((((((((((((((((((...--.)))))))).))))..)))))).)))..))))........... ( -23.80)
>DroSec_CAF1 139003 88 - 1
--------------------CA--CCCACCGAAUUCGAUUUUAAUUUUCUUUUGGUUGCCGCCGCAU--UUGGUGGCAUACUGCCAAAGGAUAUUUUAAUCCUAUGCAAAAA
--------------------..--............((((..(((..(((((((((((((((((...--.))))))))....))))))))).)))..))))........... ( -25.90)
>DroSim_CAF1 119140 88 - 1
--------------------CA--CCCACCGAAUUCGAUUUUAAUUUUCUUUUGGUUGCCGCCGCGU--UUGGUGGCAUACUGCCAAAGGAUAUUUUAAUCCUAUGCAAAAA
--------------------..--............((((..(((..(((((((((((((((((...--.))))))))....))))))))).)))..))))........... ( -25.90)
>DroEre_CAF1 126628 90 - 1
--------------------CA--CCCACCGAAUUCGAUUUUAAUUUUCUUUCGGUGGCCGCCGUGUUUUUGGUGGCACACUGCCAAAGGAUAUUUUAAUCCUAUACAAAAA
--------------------..--............((((..(((.((((((((((((((((((......))))))).)))))..)))))).)))..))))........... ( -26.60)
>DroYak_CAF1 129319 108 - 1
ACACCCCACACCACACACCCCA--CACACCGAAUUCGAUUUUAAUUUUCUUUUCGUUGCCGCCGUGU--UUGGUGGCAUACUGCCAAAGGAUAUUUUAAUCCUAUGCAAAAA
........(((((.((((....--..((.((((...((.........))..)))).)).....))))--.)))))......(((...(((((......)))))..))).... ( -21.60)
>consensus
____________________CA__CCCACCGAAUUCGAUUUUAAUUUUCUUUUGGUUGCCGCCGUGU__UUGGUGGCAUACUGCCAAAGGAUAUUUUAAUCCUAUGCAAAAA
....................................((((..(((..(((((((((((((((((......))))))))....))))))))).)))..))))........... (-22.96 = -23.60 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:50 2006