Locus 7222

Sequence ID X_DroMel_CAF1
Location 18,064,282 – 18,064,442
Length 160
Max. P 0.670746
window11807 window11808

overview

Window 7

Location 18,064,282 – 18,064,402
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.43
Mean single sequence MFE -31.00
Consensus MFE -27.62
Energy contribution -27.62
Covariance contribution 0.00
Combinations/Pair 1.08
Mean z-score -1.94
Structure conservation index 0.89
SVM decision value 0.29
SVM RNA-class probability 0.670746
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18064282 120 + 22224390
CAAAGUGUUGGAGCCAAUAACUUCAAGGCCAUGAAAAUUGGCAACUAAUUAUGGUACGAGUUACCCCAAAUCUCAUUCCACUAGCCCAAGGCAAUAGUUCUCCAAAUAACUUGCACUUUG
((((((((((((((((((...((((......)))).))))))(((((....(((...(((...........)))...)))...(((...)))..))))).))))........)))))))) ( -28.70)
>DroSec_CAF1 2177 119 + 1
CAAAGUGGUGGAGCCAAUGACUUCAAGGCCAUGACGAUUGGCAACUAAUUAUGGUACGAGUUACCCCAAAUCCCAUUCCACU-GCCCAAGGCAAUAGUUCUCCAAAGAACUUGCACUUUG
((((((((((((((((((..(.(((......))).)))))))..........((((.....))))...........)))))(-(((...))))..((((((....))))))..))))))) ( -31.40)
>DroSim_CAF1 5270 119 + 1
CAAAGUGGUGGAGCCAAUGACUUCAAGGCCAUGACGAUUGGCAACUAAUUAUGGUACGAGUCACCCCAAAUCCUAUUCCACU-GCCCAAGGCAAUAGUUCUCCAAGGAACUUGCACUUUG
(((((((((((((....((((((....(((((((.....(....)...)))))))..))))))............))))))(-(((...))))..((((((....))))))..))))))) ( -32.89)
>consensus
CAAAGUGGUGGAGCCAAUGACUUCAAGGCCAUGACGAUUGGCAACUAAUUAUGGUACGAGUUACCCCAAAUCCCAUUCCACU_GCCCAAGGCAAUAGUUCUCCAAAGAACUUGCACUUUG
(((((((((((((....((((((....(((((((.....(....)...)))))))..))))))............))))))..(((...)))...((((((....))))))..))))))) (-27.62 = -27.62 +   0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,064,322 – 18,064,442
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.10
Mean single sequence MFE -27.67
Consensus MFE -25.94
Energy contribution -25.83
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.53
Structure conservation index 0.94
SVM decision value -0.06
SVM RNA-class probability 0.505520
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18064322 120 + 22224390
GCAACUAAUUAUGGUACGAGUUACCCCAAAUCUCAUUCCACUAGCCCAAGGCAAUAGUUCUCCAAAUAACUUGCACUUUGUGCUACUAAAAAGCGGAUUGCAUCUGCAAUCUUGGCAGCC
((.........(((...(((...........)))...))).((((.(((((....((((........))))....))))).)))).......(((((((((....)))))))..)).)). ( -24.50)
>DroSec_CAF1 2217 119 + 1
GCAACUAAUUAUGGUACGAGUUACCCCAAAUCCCAUUCCACU-GCCCAAGGCAAUAGUUCUCCAAAGAACUUGCACUUUGUGCUACUAAAAAGCGGAUUGCAUCUGCAAUCUUGGCAGCC
............((((.....))))...............((-((((((((....((((((....))))))....))))).(((.......)))(((((((....))))))).))))).. ( -28.30)
>DroSim_CAF1 5310 119 + 1
GCAACUAAUUAUGGUACGAGUCACCCCAAAUCCUAUUCCACU-GCCCAAGGCAAUAGUUCUCCAAGGAACUUGCACUUUGUGCCACUAAAAAGCGGAUUGCAUCUGCAAUCUUGGCAGCC
((.........((((((((((((..................(-(((...))))..((((((....)))))))).)).)))))))).......(((((((((....)))))))..)).)). ( -30.20)
>consensus
GCAACUAAUUAUGGUACGAGUUACCCCAAAUCCCAUUCCACU_GCCCAAGGCAAUAGUUCUCCAAAGAACUUGCACUUUGUGCUACUAAAAAGCGGAUUGCAUCUGCAAUCUUGGCAGCC
((.........(((((((((.......................(((...)))...((((((....)))))).....))))))))).......(((((((((....)))))))..)).)). (-25.94 = -25.83 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:18 2006