Locus 679

Sequence ID 3L_DroMel_CAF1
Location 2,015,947 – 2,016,050
Length 103
Max. P 0.923462
window1035 window1036

overview

Window 5

Location 2,015,947 – 2,016,050
Length 103
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 87.76
Mean single sequence MFE -35.17
Consensus MFE -25.48
Energy contribution -25.22
Covariance contribution -0.25
Combinations/Pair 1.22
Mean z-score -2.60
Structure conservation index 0.72
SVM decision value 1.15
SVM RNA-class probability 0.923462
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2015947 103 + 23771897
CAAAAGCAAGCAGCACCACCGGCGACGGACUGUGCCACCCACUCAGCUACUUGGUCACCCUCUUUGGCGCCC----------CCAAGUGGUGGCUCCUUAUGCUGCAUGUUAU
....((((.((((((...(((....))).....((((((.........((((((...(((.....)).)...----------))))))))))))......)))))).)))).. ( -37.00)
>DroSim_CAF1 81540 113 + 1
CAAAAGCAAGCAGCACCACCAGCGACGGACUGUGCCAACCACUCAGCUACUUGGUCACCCUCUUUGGAGCCCACUGCUCCCCACAAGUGGUGGCUCCUUAUGCUGCAUGUUAU
....((((.((((((...........(((..(((((((............)))).)))..)))..((((((.((..((.......))..))))))))...)))))).)))).. ( -36.70)
>DroEre_CAF1 72688 112 + 1
CAAAAGCAAGCAGCACCACCAGCGACGGACUUUGCCACCCACUCAGCUACUUG-CUCCCCUCUUUGGCGCCCACAGUUCCCCUCGAGUGGUUGCUCCUUAUGCUGCAUGCUAU
....((((.((((((.....((((((((......))...((((((((.....)-)).........((.((.....)).))....))))))))))).....)))))).)))).. ( -35.40)
>DroYak_CAF1 69231 113 + 1
CAAAAGCAAGCAGCGCCACCAGCGACGGACUUUGCCACCCACUCAGCUACUUGGCCACCCUCUUUGGCGCCCACUGCUCCCCUUUAGUGGUUGCUCCUUAUGCUGCAUGUUAU
....((((.(((((((((..(((((.((..........))..)).)))...))))..........((((.((((((........)))))).))))......))))).)))).. ( -31.60)
>consensus
CAAAAGCAAGCAGCACCACCAGCGACGGACUGUGCCACCCACUCAGCUACUUGGCCACCCUCUUUGGCGCCCACUGCUCCCCUCAAGUGGUGGCUCCUUAUGCUGCAUGUUAU
....((((.((((((.....(((...((......)).........((((((((.....((.....)).((.....))......)))))))).))).....)))))).)))).. (-25.48 = -25.22 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,015,947 – 2,016,050
Length 103
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 87.76
Mean single sequence MFE -41.23
Consensus MFE -29.06
Energy contribution -30.62
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -1.60
Structure conservation index 0.70
SVM decision value 0.11
SVM RNA-class probability 0.586318
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2015947 103 - 23771897
AUAACAUGCAGCAUAAGGAGCCACCACUUGG----------GGGCGCCAAAGAGGGUGACCAAGUAGCUGAGUGGGUGGCACAGUCCGUCGCCGGUGGUGCUGCUUGCUUUUG
........((((....((.(((.((....))----------.))).)).....((....)).....))))((..((..((((...(((....)))..))))..))..)).... ( -43.10)
>DroSim_CAF1 81540 113 - 1
AUAACAUGCAGCAUAAGGAGCCACCACUUGUGGGGAGCAGUGGGCUCCAAAGAGGGUGACCAAGUAGCUGAGUGGUUGGCACAGUCCGUCGCUGGUGGUGCUGCUUGCUUUUG
....((.(((((((.....((((((((((((..(((((.....))))).....((....)).....)).)))))).)))).((((.....))))...))))))).))...... ( -45.20)
>DroEre_CAF1 72688 112 - 1
AUAGCAUGCAGCAUAAGGAGCAACCACUCGAGGGGAACUGUGGGCGCCAAAGAGGGGAG-CAAGUAGCUGAGUGGGUGGCAAAGUCCGUCGCUGGUGGUGCUGCUUGCUUUUG
..((((.(((((((....(((..((((((..((.(..(...)..).)).........((-(.....)))))))))..(((.......))))))....))))))).)))).... ( -38.50)
>DroYak_CAF1 69231 113 - 1
AUAACAUGCAGCAUAAGGAGCAACCACUAAAGGGGAGCAGUGGGCGCCAAAGAGGGUGGCCAAGUAGCUGAGUGGGUGGCAAAGUCCGUCGCUGGUGGCGCUGCUUGCUUUUG
....((.(((((....(((((..(((((...((...((..(((.((((......)))).))).))..)).)))))...))....)))((((....))))))))).))...... ( -38.10)
>consensus
AUAACAUGCAGCAUAAGGAGCAACCACUUGAGGGGAGCAGUGGGCGCCAAAGAGGGUGACCAAGUAGCUGAGUGGGUGGCAAAGUCCGUCGCUGGUGGUGCUGCUUGCUUUUG
........((((....((.((..((((............)))))).)).....((....)).....))))((..((((((((...(((....)))..))))))))..)).... (-29.06 = -30.62 +   1.56)

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 09:48:19 2006