Locus 855

Sequence ID 2R_DroMel_CAF1
Location 3,999,145 – 3,999,239
Length 94
Max. P 0.749690
window1478 window1479

overview

Window 8

Location 3,999,145 – 3,999,239
Length 94
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 90.85
Mean single sequence MFE -31.60
Consensus MFE -22.02
Energy contribution -23.90
Covariance contribution 1.88
Combinations/Pair 1.05
Mean z-score -2.44
Structure conservation index 0.70
SVM decision value 0.27
SVM RNA-class probability 0.661710
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3999145 94 + 20766785
UGGUGACCUGGCCCAAGCCGGGAAACCAAUUUCACGCACACAUAAACCGUUUGGUUAGAGAAGGAUCCGCCCACAAACACUUGGGGCAGGAAGU
((((..((((((....))))))..))))................((((....)))).........(((((((.(((....))))))).)))... ( -30.40)
>DroSec_CAF1 9137 94 + 1
UGGUGACCUGGCCCAAGCCGGGAAACCAAUUUCACGCACACAUAAACCGUUCGGUUAGAGGAGGAUCCGCCCACAAACACUUGGGCCAGGCACU
.((((.(((((((((((..((....))........((.......((((....))))...((.....)))).........))))))))))))))) ( -39.90)
>DroSim_CAF1 13102 94 + 1
UGGUGACCUGACCCAAGCCGGGAAACCAAUUUCACGCACACAUAAACCGUUCGGUUAGAGGAGGAUCCGCCCACAAACACUUGGGCCAGGCACU
.((((.((((.((((((..((....))........((.......((((....))))...((.....)))).........)))))).)))))))) ( -32.80)
>DroEre_CAF1 7121 93 + 1
UGGUGAACCGGCCAAAGCCGGGAAACCAAUUUCACGCACACAUAAACUGCUCGGUUAGCGGAGGAUCCGCCCACAAACACUUG-GCCAGGAACU
.((....))((((((((((((....))........(((.........)))..)))).((((.....))))..........)))-)))....... ( -30.40)
>DroYak_CAF1 7467 94 + 1
CGGGAACCUGGCCAAAGCCAGGAAACCAAUUUCACGCACAUAUAAACCGUUUUGUUAGAGGAGGAUUCGCCCACAAACACUUGGGCCAGGAACU
.((...((((((....))))))...))..((((.............((.((((....)))).))....(((((........)))))..)))).. ( -24.50)
>consensus
UGGUGACCUGGCCCAAGCCGGGAAACCAAUUUCACGCACACAUAAACCGUUCGGUUAGAGGAGGAUCCGCCCACAAACACUUGGGCCAGGAACU
......(((((((((((((((....)).................((((....))))...)).((......)).......))))))))))).... (-22.02 = -23.90 +   1.88) 

alignment

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secondary structure

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dotplot

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Window 9

Location 3,999,145 – 3,999,239
Length 94
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 90.85
Mean single sequence MFE -33.38
Consensus MFE -26.96
Energy contribution -27.76
Covariance contribution 0.80
Combinations/Pair 1.17
Mean z-score -1.57
Structure conservation index 0.81
SVM decision value 0.47
SVM RNA-class probability 0.749690
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3999145 94 - 20766785
ACUUCCUGCCCCAAGUGUUUGUGGGCGGAUCCUUCUCUAACCAAACGGUUUAUGUGUGCGUGAAAUUGGUUUCCCGGCUUGGGCCAGGUCACCA
....((((.(((((((.....((((.(((....)))..((((((....((((((....)))))).)))))).))))))))))).))))...... ( -29.00)
>DroSec_CAF1 9137 94 - 1
AGUGCCUGGCCCAAGUGUUUGUGGGCGGAUCCUCCUCUAACCGAACGGUUUAUGUGUGCGUGAAAUUGGUUUCCCGGCUUGGGCCAGGUCACCA
.(((((((((((((((.....((((.((.....))...((((((....((((((....)))))).)))))).)))))))))))))))).))).. ( -41.40)
>DroSim_CAF1 13102 94 - 1
AGUGCCUGGCCCAAGUGUUUGUGGGCGGAUCCUCCUCUAACCGAACGGUUUAUGUGUGCGUGAAAUUGGUUUCCCGGCUUGGGUCAGGUCACCA
.(((((((((((((((.....((((.((.....))...((((((....((((((....)))))).)))))).)))))))))))))))).))).. ( -38.70)
>DroEre_CAF1 7121 93 - 1
AGUUCCUGGC-CAAGUGUUUGUGGGCGGAUCCUCCGCUAACCGAGCAGUUUAUGUGUGCGUGAAAUUGGUUUCCCGGCUUUGGCCGGUUCACCA
.....(((((-((((.(((.(.((((((.....)))).((((((....((((((....)))))).)))))).)))))))))))))))....... ( -32.30)
>DroYak_CAF1 7467 94 - 1
AGUUCCUGGCCCAAGUGUUUGUGGGCGAAUCCUCCUCUAACAAAACGGUUUAUAUGUGCGUGAAAUUGGUUUCCUGGCUUUGGCCAGGUUCCCG
.(..(((((((.((((.((((((((.((....)))))..))))).((((((.(((....)))))))))........)))).)))))))..)... ( -25.50)
>consensus
AGUUCCUGGCCCAAGUGUUUGUGGGCGGAUCCUCCUCUAACCGAACGGUUUAUGUGUGCGUGAAAUUGGUUUCCCGGCUUGGGCCAGGUCACCA
....((((((((((((.....((((.((.....))...((((((....((((((....)))))).)))))).))))))))))))))))...... (-26.96 = -27.76 +   0.80) 

alignment

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secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:59 2006