Locus 1906

Sequence ID 3R_DroMel_CAF1
Location 5,432,344 – 5,432,461
Length 117
Max. P 0.999908
window3134 window3135

overview

Window 4

Location 5,432,344 – 5,432,461
Length 117
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 97.53
Mean single sequence MFE -38.40
Consensus MFE -37.90
Energy contribution -37.74
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -2.64
Structure conservation index 0.99
SVM decision value 4.49
SVM RNA-class probability 0.999908
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5432344 117 + 27905053
AUACCAAGUCCAAAUUGAUUUACCAUUCUGGGGUGCCAUCAUUAUAUCUGACCCAAUUGCUCGCGGGGAAGUGUGACACAUUUCUGGUGGCAAAGAUCAAUUUGGUUUGGCCA-AUGG
...(((((.((((((((((((.((.....))..((((((((..........(((..........)))((((((.....)))))))))))))).)))))))))))))))))...-.... ( -40.70)
>DroSec_CAF1 18976 117 + 1
AUACCACGUCCAAAUUGAUUUACCAUUCUGGGGUGCCAUCAUUAUAUCUGACCCAAUUGCUCGCGGGGAAGUGUGACACAUUUCUGGUGGCAAAGAUCAAUUUGGUUUGGCCA-AUGG
...(((...((((((((((((.((.....))..((((((((..........(((..........)))((((((.....)))))))))))))).))))))))))))..)))...-.... ( -38.20)
>DroSim_CAF1 14000 117 + 1
AUACCACGUCCAAAUUGAUUUACCAUUCUGGGGUGCCAUCAUUAUAUCUGACCCAAUUGCUCGCGGGGAAGUGUGACACAUUUCUGGUGGCAAAGAUCAAUUUGGUUUGGCCA-AUGG
...(((...((((((((((((.((.....))..((((((((..........(((..........)))((((((.....)))))))))))))).))))))))))))..)))...-.... ( -38.20)
>DroEre_CAF1 19570 117 + 1
AUACCAGCUCCAAAUUGAUUUACCAUUCUGGGGUGCCAUCAUUAUAUCUGACCCAAUUGCUUGCGGGGAAGUGUGACACAUUUCUGGUGGCAAAGAUCAAUUUGGUUUGGCCA-CUGG
...((((..((((((((((((.((.....))..((((((((..........(((..........)))((((((.....)))))))))))))).)))))))))))).))))...-.... ( -39.00)
>DroYak_CAF1 19895 118 + 1
AUACCACGUCUAAAUUGAUUUACCAUUCUGGGGUGCCAUCAUUAUAUCUGACCCAAUUGCUUGCGGGGAAGUGUGACACAUUUCUGGUGGCAAAGAUCAAUUUGGUUUGGCCAAAUGG
...(((...((((((((((((.((.....))..((((((((..........(((..........)))((((((.....)))))))))))))).))))))))))))..)))........ ( -35.90)
>consensus
AUACCACGUCCAAAUUGAUUUACCAUUCUGGGGUGCCAUCAUUAUAUCUGACCCAAUUGCUCGCGGGGAAGUGUGACACAUUUCUGGUGGCAAAGAUCAAUUUGGUUUGGCCA_AUGG
...(((...((((((((((((.((.....))..((((((((..........(((..........)))((((((.....)))))))))))))).))))))))))))..)))........ (-37.90 = -37.74 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 5

Location 5,432,344 – 5,432,461
Length 117
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 97.53
Mean single sequence MFE -31.54
Consensus MFE -31.40
Energy contribution -31.36
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -1.70
Structure conservation index 1.00
SVM decision value 2.36
SVM RNA-class probability 0.992848
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5432344 117 - 27905053
CCAU-UGGCCAAACCAAAUUGAUCUUUGCCACCAGAAAUGUGUCACACUUCCCCGCGAGCAAUUGGGUCAGAUAUAAUGAUGGCACCCCAGAAUGGUAAAUCAAUUUGGACUUGGUAU
....-..(((((.((((((((((..((((((........((((((((((..((((........))))..))......)).)))))).......))))))))))))))))..))))).. ( -32.86)
>DroSec_CAF1 18976 117 - 1
CCAU-UGGCCAAACCAAAUUGAUCUUUGCCACCAGAAAUGUGUCACACUUCCCCGCGAGCAAUUGGGUCAGAUAUAAUGAUGGCACCCCAGAAUGGUAAAUCAAUUUGGACGUGGUAU
....-..((((..((((((((((..((((((........((((((((((..((((........))))..))......)).)))))).......))))))))))))))))...)))).. ( -33.06)
>DroSim_CAF1 14000 117 - 1
CCAU-UGGCCAAACCAAAUUGAUCUUUGCCACCAGAAAUGUGUCACACUUCCCCGCGAGCAAUUGGGUCAGAUAUAAUGAUGGCACCCCAGAAUGGUAAAUCAAUUUGGACGUGGUAU
....-..((((..((((((((((..((((((........((((((((((..((((........))))..))......)).)))))).......))))))))))))))))...)))).. ( -33.06)
>DroEre_CAF1 19570 117 - 1
CCAG-UGGCCAAACCAAAUUGAUCUUUGCCACCAGAAAUGUGUCACACUUCCCCGCAAGCAAUUGGGUCAGAUAUAAUGAUGGCACCCCAGAAUGGUAAAUCAAUUUGGAGCUGGUAU
((((-(.......((((((((((..((((((........((((((((((..((((........))))..))......)).)))))).......)))))))))))))))).)))))... ( -32.16)
>DroYak_CAF1 19895 118 - 1
CCAUUUGGCCAAACCAAAUUGAUCUUUGCCACCAGAAAUGUGUCACACUUCCCCGCAAGCAAUUGGGUCAGAUAUAAUGAUGGCACCCCAGAAUGGUAAAUCAAUUUAGACGUGGUAU
.......((((..(.((((((((..((((((........((((((((((..((((........))))..))......)).)))))).......)))))))))))))).)...)))).. ( -26.56)
>consensus
CCAU_UGGCCAAACCAAAUUGAUCUUUGCCACCAGAAAUGUGUCACACUUCCCCGCGAGCAAUUGGGUCAGAUAUAAUGAUGGCACCCCAGAAUGGUAAAUCAAUUUGGACGUGGUAU
.......((((..((((((((((..((((((........((((((.......((.(((....)))))(((.......))))))))).......))))))))))))))))...)))).. (-31.40 = -31.36 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:31 2006