Locus 61

Sequence ID 2R_DroMel_CAF1
Location 1,315,767 – 1,315,917
Length 150
Max. P 0.998592
window116 window117

overview

Window 6

Location 1,315,767 – 1,315,887
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.33
Mean single sequence MFE -30.10
Consensus MFE -26.90
Energy contribution -28.36
Covariance contribution 1.46
Combinations/Pair 1.03
Mean z-score -1.26
Structure conservation index 0.89
SVM decision value 0.03
SVM RNA-class probability 0.547040
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1315767 120 + 20766785
UUUUUGGCAGUGUUUGCUUAGGUCUAAGCAGAAAAUCAUUAGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCAAGUAAUUGCCCACAAUUAGGCCUUAAUAGUACG
.....(((..(((..((((((..((((...(((((((.((((..((.((......)).)).))))))))))).))))))))))(((((....))))).))).....)))........... ( -29.30)
>DroSec_CAF1 34166 120 + 1
UUUUUGGCAGUGUUUGCUUAGGUCUAAGCUGAAAAUCAUUAGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCGAGUAAUUGCCCACAAUUAGGCCUUAAUAGUACG
.....(((..(((..((((((..((((..((((((((.((((..((.((......)).)).))))))))))))))))))))))(((((....))))).))).....)))........... ( -29.20)
>DroSim_CAF1 13115 120 + 1
UUUUUGGCAGUGUUUGCUUAGGUCUAAGCUGAAAAUCAUUAGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCGAGUAAUUGCCCACAAUUAGGCCUUAAUAGUACG
.....(((..(((..((((((..((((..((((((((.((((..((.((......)).)).))))))))))))))))))))))(((((....))))).))).....)))........... ( -29.20)
>DroEre_CAF1 16560 120 + 1
UUUUUGGCAGUGUUUGCUUAGGUCUAAGCCGAAAAUCAUCAGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCAAGUAAUUGCCCACAAUUAGGCCCUAAUAGAACG
.((((((..((((((((...(((....))).....(((.....))).....))))))))..)))))).(((((((((((((..(((((....))))).....))))...))))))))).. ( -29.10)
>DroYak_CAF1 3620 120 + 1
UUUUUGGCAGUGUUUGCUUAGGUCUAAGCAGAAAAUCAUUAGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCAAGUAAUUGCCCUCAAUUAGGCCUUAAUAGAACG
..(((((((...((((((((....))))))))...(((.....)))..))).))))..(((.((((((.....((((.((((.(((((....))))))))).))))))))))..)))... ( -33.70)
>consensus
UUUUUGGCAGUGUUUGCUUAGGUCUAAGCAGAAAAUCAUUAGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCAAGUAAUUGCCCACAAUUAGGCCUUAAUAGUACG
.....(((.......((((((..((((...(((((((.((((..((.((......)).)).))))))))))).))))))))))(((((....))))).........)))........... (-26.90 = -28.36 +   1.46)

alignment

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secondary structure

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dotplot

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Window 7

Location 1,315,807 – 1,315,917
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.45
Mean single sequence MFE -32.04
Consensus MFE -28.52
Energy contribution -29.82
Covariance contribution 1.30
Combinations/Pair 1.06
Mean z-score -2.27
Structure conservation index 0.89
SVM decision value 3.15
SVM RNA-class probability 0.998592
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1315807 110 + 20766785
AGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCAAGUAAUUGCCCACAAUUAGGCCUUAAUAGUACGACCAUAGAGAGGCGCUACAUACAC----------UGUGCA
.((......((((.....((((((.((((.(((((((((((..(((((....))))).....))))...)))))))...)))).)))))).)))).....))..----------...... ( -30.90)
>DroSec_CAF1 34206 120 + 1
AGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCGAGUAAUUGCCCACAAUUAGGCCUUAAUAGUACGACCAUAGAGAGGCGCUACAUACACUCACACUCACUCGGCA
.(((((...((((.....((((((.((((.(((((((((((..(((((....))))).....))))...)))))))...)))).)))))).))))...................))))). ( -31.25)
>DroSim_CAF1 13155 120 + 1
AGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCGAGUAAUUGCCCACAAUUAGGCCUUAAUAGUACGACCAUAGAGAGGCGCUACAUACACUCACACUCACUCGGCA
.(((((...((((.....((((((.((((.(((((((((((..(((((....))))).....))))...)))))))...)))).)))))).))))...................))))). ( -31.25)
>DroEre_CAF1 16600 110 + 1
AGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCAAGUAAUUGCCCACAAUUAGGCCCUAAUAGAACGACCAUAGAGAGGCGCUACAUACAC----------UGUGCA
.((......((((.....((((((.((((((((((((((((..(((((....))))).....))))...))))))))..)))).)))))).)))).....))..----------...... ( -33.80)
>DroYak_CAF1 3660 110 + 1
AGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCAAGUAAUUGCCCUCAAUUAGGCCUUAAUAGAACGACCAUAGAGAGACGCUAGAUACAC----------UGUGCA
........((((((....((((((.(((((((((((((((((.(((((....)))))))).....)))..)))))))..)))).))))))..(....)......----------)))))) ( -33.00)
>consensus
AGUUGAAAUGCGCAAAUAUCUCUAAGGUUUUUAUUAGCUGAGCGGCAAGUAAUUGCCCACAAUUAGGCCUUAAUAGUACGACCAUAGAGAGGCGCUACAUACAC__________UGUGCA
.((......((((.....((((((.((((.(((((((((((..(((((....))))).....))))...)))))))...)))).)))))).)))).....)).................. (-28.52 = -29.82 +   1.30)

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 09:25:12 2006