Locus 7746

Sequence ID 3R_DroMel_CAF1
Location 20,787,018 – 20,787,258
Length 240
Max. P 0.951239
window12493 window12494

overview

Window 3

Location 20,787,018 – 20,787,138
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -30.65
Consensus MFE -30.65
Energy contribution -30.65
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.32
Structure conservation index 1.00
SVM decision value -0.00
SVM RNA-class probability 0.532284
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20787018 120 + 27905053
AGGCGAGUCAUUAGUUCGAAGAGGUCUCUAACAAAGAGCCAGCCAAAAAAUCAUAAAAAUCCACAAAUGGUUGGCUCAUUGAGCACCGGAAUUGGCGUGCGUUGAAAGUUAUUUCUGAUU
..(((.((((....((((.(((....)))..(((.((((((((((......................)))))))))).))).....))))..)))).)))...((((....))))..... ( -30.65)
>DroSec_CAF1 2809 120 + 1
AGGCGAGUCAUUAGUUCGAAGAGGUCUCUAACAAAGAGCCAGCCAAAAAAUCAUAAAAAUCCACAAAUGGUUGGCUCAUUGAGCACCGGAAUUGGCGUGCGUUGAAAGUUAUUUCUGAUU
..(((.((((....((((.(((....)))..(((.((((((((((......................)))))))))).))).....))))..)))).)))...((((....))))..... ( -30.65)
>DroSim_CAF1 2772 120 + 1
AGGCGAGUCAUUAGUUCGAAGAGGUCUCUAACAAAGAGCCAGCCAAAAAAUCAUAAAAAUCCACAAAUGGUUGGCUCAUUGAGCACCGGAAUUGGCGUGCGUUGAAAGUUAUUUCUGAUU
..(((.((((....((((.(((....)))..(((.((((((((((......................)))))))))).))).....))))..)))).)))...((((....))))..... ( -30.65)
>consensus
AGGCGAGUCAUUAGUUCGAAGAGGUCUCUAACAAAGAGCCAGCCAAAAAAUCAUAAAAAUCCACAAAUGGUUGGCUCAUUGAGCACCGGAAUUGGCGUGCGUUGAAAGUUAUUUCUGAUU
..(((.((((....((((.(((....)))..(((.((((((((((......................)))))))))).))).....))))..)))).)))...((((....))))..... (-30.65 = -30.65 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,787,138 – 20,787,258
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 99.44
Mean single sequence MFE -31.90
Consensus MFE -30.97
Energy contribution -31.30
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.45
Structure conservation index 0.97
SVM decision value 1.41
SVM RNA-class probability 0.951239
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20787138 120 - 27905053
CAUAAGCAUCUGAUAAAUGGAGUCUGAAAACCAGAUACUGCGAGUUCUUAGUUUUGCGUUCGGCUUACGGACAGCUUACAAGGAAUUCAUUAAUUUCUUCUGUUUCCAUAUUUUGUCAUC
..........((((((((((((((((.....))))).....((((((((.((...(((((((.....))))).))..)).))))))))................)))))...)))))).. ( -31.10)
>DroSec_CAF1 2929 120 - 1
CAUAAGCAUCUGAUAAAUGGAGGCUGAAAACCAGAUACUGCGAGUUCUUAGUUUUGCGUUCGGCUUACGGACAGCUUACAAGGAAUUCAUUAAUUUCUUCUGUUUCCAUAUUUUGUCAUC
..........((((((((((((((.(((...(((...))).((((((((.((...(((((((.....))))).))..)).)))))))).........))).))))))))...)))))).. ( -32.30)
>DroSim_CAF1 2892 120 - 1
CAUAAGCAUCUGAUAAAUGGAGGCUGAAAACCAGAUACUGCGAGUUCUUAGUUUUGCGUUCGGCUUACGGACAGCUUACAAGGAAUUCAUUAAUUUCUUCUGUUUCCAUAUUUUGUCAUC
..........((((((((((((((.(((...(((...))).((((((((.((...(((((((.....))))).))..)).)))))))).........))).))))))))...)))))).. ( -32.30)
>consensus
CAUAAGCAUCUGAUAAAUGGAGGCUGAAAACCAGAUACUGCGAGUUCUUAGUUUUGCGUUCGGCUUACGGACAGCUUACAAGGAAUUCAUUAAUUUCUUCUGUUUCCAUAUUUUGUCAUC
..........((((((((((((((.(((...(((...))).((((((((.((...(((((((.....))))).))..)).)))))))).........))).))))))))...)))))).. (-30.97 = -31.30 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:41 2006