Locus 10179

Sequence ID 3R_DroMel_CAF1
Location 27,305,590 – 27,305,692
Length 102
Max. P 0.999732
window16208 window16209

overview

Window 8

Location 27,305,590 – 27,305,692
Length 102
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 93.36
Mean single sequence MFE -30.80
Consensus MFE -26.41
Energy contribution -26.29
Covariance contribution -0.12
Combinations/Pair 1.09
Mean z-score -3.30
Structure conservation index 0.86
SVM decision value 3.97
SVM RNA-class probability 0.999732
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27305590 102 + 27905053
CAAACAUAAAUCAAAUUGG-----UCAAGUCCUCUGGUUUAAGCCAAGCAAUGGAAACUCAAAAAGCCAAGAGCCCAGAGCAACUGCAGCACGCAGUCA--UGGGCAUC
...............((((-----(.........((((....))))......(....).......)))))..(((((.....(((((.....)))))..--)))))... ( -24.70)
>DroSec_CAF1 10566 107 + 1
CAAACAUAAAUCAAAUUGGCCAAGUCAAGUCCUCUGGUUUAAGCCAAGCAAUGGAAACUCAAAAAGCCAAGAGCCCAGAGCAACUGCAGCACGCAGUCA--UGGGCAUC
...............(((((.........(((.(((((....))).))....)))..........)))))..(((((.....(((((.....)))))..--)))))... ( -27.01)
>DroSim_CAF1 10981 107 + 1
CAAACAUAAAUCAAAUUGGCCAAGUCAAGUCCUCUGGUUUAAGCCAAGCAAUGGAAACUCAAAAAGCCAAGAGCCCAGAGCAACUGCAGCACGCAGUCA--UGGGCAUC
...............(((((.........(((.(((((....))).))....)))..........)))))..(((((.....(((((.....)))))..--)))))... ( -27.01)
>DroEre_CAF1 10833 109 + 1
UAGACAUAAAUCAAAUUGGCCAAGUCAAGUCUUCUGGCUUAAGCCAAGAAAUGGAAACUUAAAAGGCCAAGAGCCCAGAGCAACUGCAGCACGCAGUCACCUGGGCAAC
...............((((((..........(((((((....))).))))..(....)......))))))..((((((.(..(((((.....)))))..)))))))... ( -38.70)
>DroYak_CAF1 6897 109 + 1
CAAACAUAAAUCAAAUUGGCCAAGUCAAGUCCUCUGGUUUAAGCCAAGAAAUGGAAACUUAAAAGGCCAAGAGCCCAGAGCAACUGCAGCACGCAGUCACCUGGGCAAC
...............((((((((((....(((((((((....))).)))...))).))))....))))))..((((((.(..(((((.....)))))..)))))))... ( -36.60)
>consensus
CAAACAUAAAUCAAAUUGGCCAAGUCAAGUCCUCUGGUUUAAGCCAAGCAAUGGAAACUCAAAAAGCCAAGAGCCCAGAGCAACUGCAGCACGCAGUCA__UGGGCAUC
...............(((((.........(((.(((((....))).))....)))..........)))))..(((((.....(((((.....)))))....)))))... (-26.41 = -26.29 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 9

Location 27,305,590 – 27,305,692
Length 102
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 93.36
Mean single sequence MFE -34.50
Consensus MFE -30.48
Energy contribution -30.48
Covariance contribution 0.00
Combinations/Pair 1.07
Mean z-score -2.35
Structure conservation index 0.88
SVM decision value 3.30
SVM RNA-class probability 0.998960
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27305590 102 - 27905053
GAUGCCCA--UGACUGCGUGCUGCAGUUGCUCUGGGCUCUUGGCUUUUUGAGUUUCCAUUGCUUGGCUUAAACCAGAGGACUUGA-----CCAAUUUGAUUUAUGUUUG
((.(((((--(((((((.....)))))))...)))))))((((....(..((((..(......(((......))))..))))..)-----))))............... ( -24.20)
>DroSec_CAF1 10566 107 - 1
GAUGCCCA--UGACUGCGUGCUGCAGUUGCUCUGGGCUCUUGGCUUUUUGAGUUUCCAUUGCUUGGCUUAAACCAGAGGACUUGACUUGGCCAAUUUGAUUUAUGUUUG
((.(((((--(((((((.....)))))))...)))))))((((((..(..((((..(......(((......))))..))))..)...))))))............... ( -30.80)
>DroSim_CAF1 10981 107 - 1
GAUGCCCA--UGACUGCGUGCUGCAGUUGCUCUGGGCUCUUGGCUUUUUGAGUUUCCAUUGCUUGGCUUAAACCAGAGGACUUGACUUGGCCAAUUUGAUUUAUGUUUG
((.(((((--(((((((.....)))))))...)))))))((((((..(..((((..(......(((......))))..))))..)...))))))............... ( -30.80)
>DroEre_CAF1 10833 109 - 1
GUUGCCCAGGUGACUGCGUGCUGCAGUUGCUCUGGGCUCUUGGCCUUUUAAGUUUCCAUUUCUUGGCUUAAGCCAGAAGACUUGACUUGGCCAAUUUGAUUUAUGUCUA
...(((((((..(((((.....)))))..).))))))..((((((..(((((((.....((((.(((....))))))))))))))...))))))...(((....))).. ( -45.50)
>DroYak_CAF1 6897 109 - 1
GUUGCCCAGGUGACUGCGUGCUGCAGUUGCUCUGGGCUCUUGGCCUUUUAAGUUUCCAUUUCUUGGCUUAAACCAGAGGACUUGACUUGGCCAAUUUGAUUUAUGUUUG
...(((((((..(((((.....)))))..).))))))..((((((..(((((((.....((((.((......)))))))))))))...))))))............... ( -41.20)
>consensus
GAUGCCCA__UGACUGCGUGCUGCAGUUGCUCUGGGCUCUUGGCUUUUUGAGUUUCCAUUGCUUGGCUUAAACCAGAGGACUUGACUUGGCCAAUUUGAUUUAUGUUUG
...(((((..(((((((.....)))))))...)))))..((((((..(((((((..(......(((......))))..)))))))...))))))............... (-30.48 = -30.48 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:50:46 2006