Locus 667

Sequence ID 2R_DroMel_CAF1
Location 3,304,588 – 3,304,748
Length 160
Max. P 0.991082
window1180 window1181 window1182

overview

Window 0

Location 3,304,588 – 3,304,708
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.22
Mean single sequence MFE -52.70
Consensus MFE -48.85
Energy contribution -48.97
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.86
Structure conservation index 0.93
SVM decision value 0.35
SVM RNA-class probability 0.702266
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3304588 120 + 20766785
CUUCUUGGCGCCGCCCUUCAAGUGGGUGGACGCCUUGUCAAUGGUGGUGAACACUCCGGUGGACUCCACCACAUACUCGGCUCCAGCACUGGCCCAGUUGAUGUUGGCCGGGUCGCGCUC
......(((((.((((....(((.(.((((.(((..((...((((((.(..(((....)))..).))))))...))..))))))).))))((((((.....))..)))))))).))))). ( -52.00)
>DroEre_CAF1 655 120 + 1
CUUCUUGGCACCGCCCUUCAAGUGGGUGGACGCCUUGUCGAUGGUGGUGAACACUCCGGUGGACUCCACCACAUACUCGGCUCCAGCGCUGGCCCAGUUGAUGUUGGCCGGGUCGCGCUC
......(((.((((((.......))))))..)))..(((((((((((.(..(((....)))..).)))))).....)))))...(((((.(((((.(((......))).)))))))))). ( -53.20)
>DroYak_CAF1 655 120 + 1
CUUCUUGGCACCGCCCUUCAAGUGGGUGGACGCCUUGUCGAUGGUGGUGAACACUCCGGUGGACUCCACCACAUACUCGGCUCCAGCGCUGGCCCAGUUGAUGUUGGCGGGGUCGCGUUC
......(((.(((((..((((.(((((.(.(((...(((((((((((.(..(((....)))..).)))))).....)))))....))).).))))).))))....))))).)))...... ( -52.90)
>consensus
CUUCUUGGCACCGCCCUUCAAGUGGGUGGACGCCUUGUCGAUGGUGGUGAACACUCCGGUGGACUCCACCACAUACUCGGCUCCAGCGCUGGCCCAGUUGAUGUUGGCCGGGUCGCGCUC
.....(((..((((((.......))))))..(((..((...((((((.(..(((....)))..).))))))...))..))).)))((((.(((((.(((......))).))))))))).. (-48.85 = -48.97 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,304,628 – 3,304,748
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -55.07
Consensus MFE -54.39
Energy contribution -54.50
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -3.27
Structure conservation index 0.99
SVM decision value 2.25
SVM RNA-class probability 0.991082
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3304628 120 + 20766785
AUGGUGGUGAACACUCCGGUGGACUCCACCACAUACUCGGCUCCAGCACUGGCCCAGUUGAUGUUGGCCGGGUCGCGCUCGCUGAACACGGUGAUCUUCUGGCCGUUCACCACCAGGAAU
.(((((((((((.....(((((...)))))(((((((.((((........)))).)))..)))).(((((((....(.((((((....)))))).).))))))))))))))))))..... ( -53.10)
>DroEre_CAF1 695 120 + 1
AUGGUGGUGAACACUCCGGUGGACUCCACCACAUACUCGGCUCCAGCGCUGGCCCAGUUGAUGUUGGCCGGGUCGCGCUCGCUGAACACGGUGAUCUUCUGGCCGUUCACCACCAGGAAU
.(((((((((((.....(((((...)))))........((((...((((.(((((.(((......))).)))))))))((((((....))))))......)))))))))))))))..... ( -57.20)
>DroYak_CAF1 695 120 + 1
AUGGUGGUGAACACUCCGGUGGACUCCACCACAUACUCGGCUCCAGCGCUGGCCCAGUUGAUGUUGGCGGGGUCGCGUUCGCUGAACACGGUGAUCUUCUGGCCGUUCACCACCAGGAAU
.(((((((((((.....(((((...)))))........((((...((((.(((((.(((......))).)))))))))((((((....))))))......)))))))))))))))..... ( -54.90)
>consensus
AUGGUGGUGAACACUCCGGUGGACUCCACCACAUACUCGGCUCCAGCGCUGGCCCAGUUGAUGUUGGCCGGGUCGCGCUCGCUGAACACGGUGAUCUUCUGGCCGUUCACCACCAGGAAU
.(((((((((((.....(((((...)))))........((((...((((.(((((.(((......))).)))))))))((((((....))))))......)))))))))))))))..... (-54.39 = -54.50 +   0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 3,304,628 – 3,304,748
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -51.77
Consensus MFE -48.95
Energy contribution -49.07
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.38
Structure conservation index 0.95
SVM decision value 1.18
SVM RNA-class probability 0.926349
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3304628 120 - 20766785
AUUCCUGGUGGUGAACGGCCAGAAGAUCACCGUGUUCAGCGAGCGCGACCCGGCCAACAUCAACUGGGCCAGUGCUGGAGCCGAGUAUGUGGUGGAGUCCACCGGAGUGUUCACCACCAU
.....(((((((((((((((.(.....)..(((((((...)))))))....)))).((((..(((.((((.......).))).)))))))(((((...))))).....))))))))))). ( -51.00)
>DroEre_CAF1 695 120 - 1
AUUCCUGGUGGUGAACGGCCAGAAGAUCACCGUGUUCAGCGAGCGCGACCCGGCCAACAUCAACUGGGCCAGCGCUGGAGCCGAGUAUGUGGUGGAGUCCACCGGAGUGUUCACCACCAU
.....((((((((((((.((..........(((((((.((.(((((..(((((..........)))))...)))))...)).))))))).(((((...)))))))..)))))))))))). ( -52.30)
>DroYak_CAF1 695 120 - 1
AUUCCUGGUGGUGAACGGCCAGAAGAUCACCGUGUUCAGCGAACGCGACCCCGCCAACAUCAACUGGGCCAGCGCUGGAGCCGAGUAUGUGGUGGAGUCCACCGGAGUGUUCACCACCAU
.....((((((((((((.((...........((((((...))))))(((.((((((.(((..(((.((((.......).))).)))))))))))).)))....))..)))))))))))). ( -52.00)
>consensus
AUUCCUGGUGGUGAACGGCCAGAAGAUCACCGUGUUCAGCGAGCGCGACCCGGCCAACAUCAACUGGGCCAGCGCUGGAGCCGAGUAUGUGGUGGAGUCCACCGGAGUGUUCACCACCAU
.....(((((((((((((((.(.....)..(((((((...)))))))....)))).((((..(((.((((.......).))).)))))))(((((...))))).....))))))))))). (-48.95 = -49.07 +   0.11)

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 09:44:10 2006