Locus 2348

Sequence ID 3R_DroMel_CAF1
Location 6,681,182 – 6,681,302
Length 120
Max. P 0.986271
window3791 window3792

overview

Window 1

Location 6,681,182 – 6,681,302
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.33
Mean single sequence MFE -36.94
Consensus MFE -33.96
Energy contribution -34.40
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.83
Structure conservation index 0.92
SVM decision value 2.04
SVM RNA-class probability 0.986271
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6681182 120 + 27905053
CAAGGUGAAUGCCGAAAAGACUCCAUUCCUCACCCAGCGACUGCGCAUCAAGGUGAUACCCACCAUCGCCCUGGUGAAGGACAGCAAGACCAAGGACUUCAUUGUCGGAUUCACCGAUCU
...(((((((.((((...((.(((..((((((((..(((....))).....((((((.......))))))..)))).))))(.....).....)))..))....)))))))))))..... ( -37.40)
>DroSec_CAF1 65938 120 + 1
CAAGGUGAAUGCCGAAAAGACUCCAUUCCUCACCCAGCGACUGCGCAUCAAGGUGAUACCCACCAUCGCCUUGGUGAAGGACAGCAAGACCAAGGACUUCAUUGUCGGAUUCACCGAUCU
...(((((((.((((...((.(((..((((((((..(((....)))...((((((((.......)))))))))))).))))(.....).....)))..))....)))))))))))..... ( -39.90)
>DroSim_CAF1 66734 120 + 1
CAAGGUGAAUGCCGAAAAGACUCCAUUCCUCACCCAGCGACUGCGCAUCAAGGUGAUACCCACCAUCGCCCUGGUGAAGGACAGCAAGACCAAGGACUUUAUUGUCGGAUUCACCGAUCU
...(((((((.((((..(((.(((..((((((((..(((....))).....((((((.......))))))..)))).))))(.....).....))).)))....)))))))))))..... ( -37.90)
>DroEre_CAF1 67173 120 + 1
CAAGGUUAAUGCCGAAAAGACUCCUUUCCUGACCCAGCGGCUGCGCAUCAAGGUGAUACCCACCAUCGCCCUGGUGAAGGACAGCAAGACCAAGGACUUCAUUGUCGGAUUCACCGAUCU
...(((.(((.((((...((.(((((((((...((((.(((((.....)).((((.....))))...)))))))...))))..........)))))..))....))))))).)))..... ( -33.20)
>DroYak_CAF1 67783 120 + 1
CAAGGUGAAUGCCGAAAAGACUCCUUUCCUCACCCAGCGGCUGCGCAUCAAGGUUAUACCCACCAUCGCCCUGGUGAAGGACAGCAAGACCAAGGACUUCAUUGUCGGAUUCACCGAUCU
...(((((((.((((...((.(((((((((((((.((.(((((.....)).(((.......)))...))))))))).))))..........)))))..))....)))))))))))..... ( -36.30)
>consensus
CAAGGUGAAUGCCGAAAAGACUCCAUUCCUCACCCAGCGACUGCGCAUCAAGGUGAUACCCACCAUCGCCCUGGUGAAGGACAGCAAGACCAAGGACUUCAUUGUCGGAUUCACCGAUCU
...(((((((.((((...((.(((..((((((((..(((....))).....((((((.......))))))..)))).))))(.....).....)))..))....)))))))))))..... (-33.96 = -34.40 +   0.44)

alignment

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secondary structure

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dotplot

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Window 2

Location 6,681,182 – 6,681,302
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.33
Mean single sequence MFE -44.40
Consensus MFE -40.76
Energy contribution -41.76
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.92
SVM decision value 1.53
SVM RNA-class probability 0.961912
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6681182 120 - 27905053
AGAUCGGUGAAUCCGACAAUGAAGUCCUUGGUCUUGCUGUCCUUCACCAGGGCGAUGGUGGGUAUCACCUUGAUGCGCAGUCGCUGGGUGAGGAAUGGAGUCUUUUCGGCAUUCACCUUG
.....(((((((((((.((.((..(((..((.....)).((((.((((..((((((..((.(((((.....))))).)))))))).))))))))..))).)))).)))).)))))))... ( -47.00)
>DroSec_CAF1 65938 120 - 1
AGAUCGGUGAAUCCGACAAUGAAGUCCUUGGUCUUGCUGUCCUUCACCAAGGCGAUGGUGGGUAUCACCUUGAUGCGCAGUCGCUGGGUGAGGAAUGGAGUCUUUUCGGCAUUCACCUUG
.....(((((((((((.((.((..(((..((.....)).((((.((((..((((((..((.(((((.....))))).)))))))).))))))))..))).)))).)))).)))))))... ( -46.10)
>DroSim_CAF1 66734 120 - 1
AGAUCGGUGAAUCCGACAAUAAAGUCCUUGGUCUUGCUGUCCUUCACCAGGGCGAUGGUGGGUAUCACCUUGAUGCGCAGUCGCUGGGUGAGGAAUGGAGUCUUUUCGGCAUUCACCUUG
.....(((((((((((((...(((.(....).)))..))))(((((((..((((((..((.(((((.....))))).)))))))).)))))))...)))(((.....))).))))))... ( -46.90)
>DroEre_CAF1 67173 120 - 1
AGAUCGGUGAAUCCGACAAUGAAGUCCUUGGUCUUGCUGUCCUUCACCAGGGCGAUGGUGGGUAUCACCUUGAUGCGCAGCCGCUGGGUCAGGAAAGGAGUCUUUUCGGCAUUAACCUUG
.....(((.(((((((.((.((..((((((..((.((((((((.....))))))..((((.(((((.....))))).)).)))).))..))....)))).)))).)))).))).)))... ( -38.40)
>DroYak_CAF1 67783 120 - 1
AGAUCGGUGAAUCCGACAAUGAAGUCCUUGGUCUUGCUGUCCUUCACCAGGGCGAUGGUGGGUAUAACCUUGAUGCGCAGCCGCUGGGUGAGGAAAGGAGUCUUUUCGGCAUUCACCUUG
.....(((((((((((.((.((..(((((((.....)).((((.((((..((((..(.((.((((.......)))).)).))))).))))))))))))).)))).)))).)))))))... ( -43.60)
>consensus
AGAUCGGUGAAUCCGACAAUGAAGUCCUUGGUCUUGCUGUCCUUCACCAGGGCGAUGGUGGGUAUCACCUUGAUGCGCAGUCGCUGGGUGAGGAAUGGAGUCUUUUCGGCAUUCACCUUG
.....(((((((((((((...(((.(....).)))..))))(((((((..((((((..((.(((((.....))))).)))))))).)))))))...)))(((.....))).))))))... (-40.76 = -41.76 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:09 2006