Locus 6888

Sequence ID 3R_DroMel_CAF1
Location 18,196,662 – 18,196,793
Length 131
Max. P 0.999464
window11182 window11183

overview

Window 2

Location 18,196,662 – 18,196,753
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 96.70
Mean single sequence MFE -42.02
Consensus MFE -40.70
Energy contribution -40.58
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -2.15
Structure conservation index 0.97
SVM decision value 3.63
SVM RNA-class probability 0.999464
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18196662 91 - 27905053
UUCACCGCCUGGCGCACAUUGGCCACGGUGGCGGCAUGGUACUCGUGCGAUCCGUGAGAGAAGUUCAUGCGCGCGAUGUUCAUGCCGGUGG
....(((((((((........)))).)))))((((((((.(((((((((...((((((.....))))))))))))).)))))))))).... ( -43.80)
>DroSec_CAF1 4738 91 - 1
UUCACCGCCUGGCGCACAUUGGCCACAGUGGCGGCGUGGUACUCGUGCGAUCCGUGAGAGAAGUUCAUGCGCGCGAUGUUCAUGCCGGUGG
..(((((((((((........))))....)))(((((((.(((((((((...((((((.....))))))))))))).))))))))))))). ( -42.80)
>DroSim_CAF1 4792 91 - 1
UUCACCGCCUGGCGCACAUUGGCCACGGUGGCGGCGUGGUACUCGUGCGAUCCGUGAGAGAAGUUCAUGCGCGCGAUGUUCAUGCCGGUGG
....(((((((((........)))).)))))((((((((.(((((((((...((((((.....))))))))))))).)))))))))).... ( -43.40)
>DroEre_CAF1 4972 91 - 1
UUCACCGCCUGACGCACAUUGGCCACGGUGGCGGCGUGGUACUCGUGCGAUCCGUGAGAGAAGUUCAUGCGCGCAACAUUCAUGCCGGUGG
....(((((....((.(((((....)))))))(((((((.....(((((...((((((.....))))))))))).....)))))))))))) ( -36.70)
>DroYak_CAF1 4864 91 - 1
UUAACCGCCUGGCGCACAUUGGCCACGGUGGCGGCGUGGUACUCGUGCGAUCCGUGAGAGAAGUUCAUGCGCGCGACGUUCAUGCCGGUGG
....(((((((((........)))).)))))((((((((.(((((((((...((((((.....))))))))))))).)))))))))).... ( -43.40)
>consensus
UUCACCGCCUGGCGCACAUUGGCCACGGUGGCGGCGUGGUACUCGUGCGAUCCGUGAGAGAAGUUCAUGCGCGCGAUGUUCAUGCCGGUGG
....(((((....((.(((((....)))))))(((((((...(((((((...((((((.....)))))))))))))...)))))))))))) (-40.70 = -40.58 +  -0.12)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 18,196,702 – 18,196,793
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 97.80
Mean single sequence MFE -35.14
Consensus MFE -35.10
Energy contribution -35.02
Covariance contribution -0.08
Combinations/Pair 1.07
Mean z-score -1.24
Structure conservation index 1.00
SVM decision value 0.66
SVM RNA-class probability 0.814419
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18196702 91 + 27905053
AUCGCACGAGUACCAUGCCGCCACCGUGGCCAAUGUGCGCCAGGCGGUGAAGAACUACUCGGCCAAGCUGGGCUACGAACACCCCGUGGCC
...((.((((((......((((.((.(((((.....).)))))).))))......)))))))).......(((((((.......))))))) ( -34.70)
>DroSec_CAF1 4778 91 + 1
AUCGCACGAGUACCACGCCGCCACUGUGGCCAAUGUGCGCCAGGCGGUGAAGAACUACUCGGCCAAGCUGGGCUACGAACACCCCGUGGCC
...((.((((((...(((((((....(((((.....).)))))))))))......)))))))).......(((((((.......))))))) ( -36.50)
>DroSim_CAF1 4832 91 + 1
AUCGCACGAGUACCACGCCGCCACCGUGGCCAAUGUGCGCCAGGCGGUGAAGAACUACUCGGCCAAGCUGGGCUACGAACACCCCGUGGCC
...((.((((((...(((((((....(((((.....).)))))))))))......)))))))).......(((((((.......))))))) ( -36.50)
>DroEre_CAF1 5012 91 + 1
AUCGCACGAGUACCACGCCGCCACCGUGGCCAAUGUGCGUCAGGCGGUGAAGAACUACUCGGCCAAGCUGGGCUACGAACAUCCCGUGGCC
...((.((((((...(((((((....(((((.....).)))))))))))......)))))))).......(((((((.......))))))) ( -33.80)
>DroYak_CAF1 4904 91 + 1
AUCGCACGAGUACCACGCCGCCACCGUGGCCAAUGUGCGCCAGGCGGUUAAGAACUACUCGGCCAAGCUGGGCUACGAACACCCCGUGGCC
...((.((((((....((((((....(((((.....).)))))))))).......)))))))).......(((((((.......))))))) ( -34.20)
>consensus
AUCGCACGAGUACCACGCCGCCACCGUGGCCAAUGUGCGCCAGGCGGUGAAGAACUACUCGGCCAAGCUGGGCUACGAACACCCCGUGGCC
...((.((((((...(((((((....(((((.....).)))))))))))......)))))))).......(((((((.......))))))) (-35.10 = -35.02 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:33 2006