Locus 749

Sequence ID 3L_DroMel_CAF1
Location 2,238,412 – 2,238,546
Length 134
Max. P 0.991036
window1152 window1153 window1154

overview

Window 2

Location 2,238,412 – 2,238,509
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 98.63
Mean single sequence MFE -29.23
Consensus MFE -29.15
Energy contribution -28.93
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -3.12
Structure conservation index 1.00
SVM decision value 2.24
SVM RNA-class probability 0.991036
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2238412 97 + 23771897
AAUAAUAAGCAAAUGAGCCAAACUGCCAAGUGUUGGCUUGUAAAUUGGCUGAUAAGUGCGCCGGAGACACUUGUAGCUGGCAAUCGCAAUUAUAAAU
.(((((..(((.((.((((((((.((((.....))))..))...)))))).))...)))(((((..((....))..))))).......))))).... ( -29.70)
>DroSec_CAF1 19369 97 + 1
AAUAAUAAGCAAAUGAGCCAGACUGCCAAGUGUUAGCUUGUAAAUUGGCUGAUAAGUGCGCCGGAGACACUUGUAGCUGGCAAUCGCAAUUAUAAAU
.(((((..(((.((.((((((..(((.((((....)))))))..)))))).))...)))(((((..((....))..))))).......))))).... ( -29.00)
>DroSim_CAF1 19451 97 + 1
AAUAAUAAGCAAAUGAGCCAGACUGCCAAGUGUUAGCUUGUAAAUUGGCUGAUAAGUGCGCCGGAGACACUUGUAGCUGGCAAUCGCAAUUAUAAAU
.(((((..(((.((.((((((..(((.((((....)))))))..)))))).))...)))(((((..((....))..))))).......))))).... ( -29.00)
>consensus
AAUAAUAAGCAAAUGAGCCAGACUGCCAAGUGUUAGCUUGUAAAUUGGCUGAUAAGUGCGCCGGAGACACUUGUAGCUGGCAAUCGCAAUUAUAAAU
.(((((..(((.((.((((((..(((.((((....)))))))..)))))).))...)))(((((..((....))..))))).......))))).... (-29.15 = -28.93 +  -0.22) 

alignment

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secondary structure

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dotplot

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Window 3

Location 2,238,412 – 2,238,509
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 98.63
Mean single sequence MFE -24.58
Consensus MFE -24.72
Energy contribution -24.28
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -2.54
Structure conservation index 1.01
SVM decision value 1.85
SVM RNA-class probability 0.980040
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2238412 97 - 23771897
AUUUAUAAUUGCGAUUGCCAGCUACAAGUGUCUCCGGCGCACUUAUCAGCCAAUUUACAAGCCAACACUUGGCAGUUUGGCUCAUUUGCUUAUUAUU
....(((((.((((..(((((((.(((((((....(((......................))).)))))))..)).)))))....))))..))))). ( -23.95)
>DroSec_CAF1 19369 97 - 1
AUUUAUAAUUGCGAUUGCCAGCUACAAGUGUCUCCGGCGCACUUAUCAGCCAAUUUACAAGCUAACACUUGGCAGUCUGGCUCAUUUGCUUAUUAUU
....(((((.((((..(((((((.(((((((....(((..........)))....((.....)))))))))..)).)))))....))))..))))). ( -24.90)
>DroSim_CAF1 19451 97 - 1
AUUUAUAAUUGCGAUUGCCAGCUACAAGUGUCUCCGGCGCACUUAUCAGCCAAUUUACAAGCUAACACUUGGCAGUCUGGCUCAUUUGCUUAUUAUU
....(((((.((((..(((((((.(((((((....(((..........)))....((.....)))))))))..)).)))))....))))..))))). ( -24.90)
>consensus
AUUUAUAAUUGCGAUUGCCAGCUACAAGUGUCUCCGGCGCACUUAUCAGCCAAUUUACAAGCUAACACUUGGCAGUCUGGCUCAUUUGCUUAUUAUU
....(((((.((((..(((((((.(((((((....(((......................))).)))))))..)).)))))....))))..))))). (-24.72 = -24.28 +  -0.44) 

alignment

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secondary structure

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dotplot

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Window 4

Location 2,238,450 – 2,238,546
Length 96
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 97.92
Mean single sequence MFE -31.80
Consensus MFE -31.80
Energy contribution -32.13
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.19
Structure conservation index 1.00
SVM decision value 1.40
SVM RNA-class probability 0.950580
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2238450 96 - 23771897
AGUAACCGGGGACGCGUGGCUGCUGCCAGUUACCAGCAUUUAUAAUUGCGAUUGCCAGCUACAAGUGUCUCCGGCGCACUUAUCAGCCAAUUUACA
.((((((((((((((.((...((((.(((((....(((........)))))))).))))..)).)))))))))).((........))....)))). ( -34.30)
>DroSec_CAF1 19407 96 - 1
AGUAACAGGGUACGCGUGGCUGCUGCCAGUUACGAGCAUUUAUAAUUGCGAUUGCCAGCUACAAGUGUCUCCGGCGCACUUAUCAGCCAAUUUACA
.((((..((..((((.((...((((.(((((....(((........)))))))).))))..)).))))..))(((..........)))...)))). ( -27.50)
>DroSim_CAF1 19489 96 - 1
AGUAACAGGGGACGCGUGGCUGCUGCCAGUUACGAGCAUUUAUAAUUGCGAUUGCCAGCUACAAGUGUCUCCGGCGCACUUAUCAGCCAAUUUACA
.((((..((((((((.((...((((.(((((....(((........)))))))).))))..)).))))))))(((..........)))...)))). ( -33.60)
>consensus
AGUAACAGGGGACGCGUGGCUGCUGCCAGUUACGAGCAUUUAUAAUUGCGAUUGCCAGCUACAAGUGUCUCCGGCGCACUUAUCAGCCAAUUUACA
.((((..((((((((.((...((((.(((((....(((........)))))))).))))..)).))))))))(((..........)))...)))). (-31.80 = -32.13 +   0.33) 

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:14 2006