Locus 914

Sequence ID 2R_DroMel_CAF1
Location 4,057,140 – 4,057,444
Length 304
Max. P 0.955632
window1611 window1612 window1613 window1614

overview

Window 1

Location 4,057,140 – 4,057,249
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.58
Mean single sequence MFE -23.72
Consensus MFE -21.14
Energy contribution -21.10
Covariance contribution -0.04
Combinations/Pair 1.12
Mean z-score -1.20
Structure conservation index 0.89
SVM decision value 0.17
SVM RNA-class probability 0.617035
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4057140 109 + 20766785
UUCAACAAAUUGAAACCACAAAAACUUGCCGAGCCGUUUUAAAACAGUUUAAAAACA-----------GUUGCUGCACAUUUAAAGUUCAAUUUACAAGGACUUUGAGUGGUUAGCUGCA
(((((....)))))................((((.(((....))).)))).......-----------((.((((..((((((((((((.........))))))))))))..)))).)). ( -22.80)
>DroSec_CAF1 39822 120 + 1
UUGAACAAAUUGAAACCACAAAAACUUGCCGAGCCGUUUUAAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACAUUUAAAGUUCAAUUUACAAGGACUUUGAGUGGCUAGCUGCA
.......(((((((....(((....))).(((....(((((((....)))))))....)))...)))))))(((((.((((((((((((.........)))))))))))))).))).... ( -25.80)
>DroSim_CAF1 45991 120 + 1
UUGAACAAAUUGAAACCACAAAAACUUGCCGAGCCGUUUUAAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACAUUUAAAGUUCAAUUUACAAGGACUUUGAGUGGCUAGCUGCA
.......(((((((....(((....))).(((....(((((((....)))))))....)))...)))))))(((((.((((((((((((.........)))))))))))))).))).... ( -25.80)
>DroEre_CAF1 40595 119 + 1
UUUAACAAAUUGAAACCACA-AAACUUGCCGAGCCGUUUUAAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACACCUAAAGUUCAAUUUACAAAGGCUUUGAGUGGCUAGCUGCA
....................-...((.((((((((.(((((((....)))))))......((((((.((.((.....)).)).))))))..........))))).....))).))..... ( -19.90)
>DroYak_CAF1 43310 120 + 1
UUCCACAAAUUGAAACCACAGAAACUUGCCGAGCCGUUUUAAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACACUUAAAGUUCAAUUUACAAAGGCUUUGAGUGGCUAGCUGCA
.......(((((((....(((....))).(((....(((((((....)))))))....)))...)))))))(((((.(((((((((((...........))))))))))))).))).... ( -24.30)
>consensus
UUCAACAAAUUGAAACCACAAAAACUUGCCGAGCCGUUUUAAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACAUUUAAAGUUCAAUUUACAAGGACUUUGAGUGGCUAGCUGCA
..............................((((.(((....))).))))..................((.(((((.((((((((((((.........)))))))))))))).))).)). (-21.14 = -21.10 +  -0.04) 

alignment

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secondary structure

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dotplot

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Window 2

Location 4,057,180 – 4,057,284
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.92
Mean single sequence MFE -23.16
Consensus MFE -20.36
Energy contribution -20.32
Covariance contribution -0.04
Combinations/Pair 1.11
Mean z-score -1.21
Structure conservation index 0.88
SVM decision value 0.01
SVM RNA-class probability 0.536989
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4057180 104 + 20766785
AAAACAGUUUAAAAACA-----------GUUGCUGCACAUUUAAAGUUCAAUUUACAAGGACUUUGAGUGGUUAGCUGCAUGUGCAUACCUGGCCAAAAAUUCAAAAGAAACUUU-----
....(((.......(((-----------((.((((..((((((((((((.........))))))))))))..)))).)).)))......))).......................----- ( -23.22)
>DroSec_CAF1 39862 120 + 1
AAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACAUUUAAAGUUCAAUUUACAAGGACUUUGAGUGGCUAGCUGCAUGUGCAUACCUGGCCAAAAAUUCAAAAGAAACUUUCAGUU
.....(((((.....((((..(((....)))))))...(((((((((((.........)))))))))))((((((.(((....)))...)))))).............)))))....... ( -25.30)
>DroSim_CAF1 46031 120 + 1
AAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACAUUUAAAGUUCAAUUUACAAGGACUUUGAGUGGCUAGCUGCAUGUGCAUACCUGGCCAAAAAUUCAAAAGAAACUUUCAGUU
.....(((((.....((((..(((....)))))))...(((((((((((.........)))))))))))((((((.(((....)))...)))))).............)))))....... ( -25.30)
>DroEre_CAF1 40634 120 + 1
AAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACACCUAAAGUUCAAUUUACAAAGGCUUUGAGUGGCUAGCUGCAUGUACAUACCUGGCCAACAAUUCAAAAGAAACUUUCCGCU
.....(((((..........((((((.((.((.....)).)).)))))).............(((((((((((((.((........)).)))))))....))))))..)))))....... ( -20.50)
>DroYak_CAF1 43350 120 + 1
AAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACACUUAAAGUUCAAUUUACAAAGGCUUUGAGUGGCUAGCUGCAUGUACAUACCUGGCCAAAAAUUCAAAAGAAACUUUAAGUU
.....(((((..................((.(((((.(((((((((((...........))))))))))))).))).)).((..((....))..))............)))))....... ( -21.50)
>consensus
AAAACAGUUUAAAAACAGUCGAACUUCAGUUGCUGCACAUUUAAAGUUCAAUUUACAAGGACUUUGAGUGGCUAGCUGCAUGUGCAUACCUGGCCAAAAAUUCAAAAGAAACUUUCAGUU
.....(((((..................((.(((((.((((((((((((.........)))))))))))))).))).)).((..((....))..))............)))))....... (-20.36 = -20.32 +  -0.04) 

alignment

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secondary structure

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dotplot

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Window 3

Location 4,057,284 – 4,057,404
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.78
Mean single sequence MFE -24.03
Consensus MFE -22.45
Energy contribution -22.23
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.72
Structure conservation index 0.93
SVM decision value 1.46
SVM RNA-class probability 0.955632
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4057284 120 - 20766785
AAAGAUAAACAUUAGCAGACUUUAGUUUCGAAAGAAAUGUGAGACAAUUAAAAAAAAGCAAUGGAAAGGAUACAAUGGUGAGGCGAUCGAAGAACUUGCAUUAUCCUAUAAAAGUUUGCG
..............(((((((((.(((((....)))))............................((((((.....(..((............))..)..))))))...))))))))). ( -26.10)
>DroSec_CAF1 39982 120 - 1
AAAGAUAAACAUUAGCAGACUUUAGUUUCGAAAGAAAUGUGAGACAAUUAAAAAAAAGCAAUGGAAAAGAUACAAUGGUGAAGCGAUCAAAGAACUUGCAUUAUCCCAUAAAAGUUUGCG
..............(((((((((.(((((....)))))......................((((............(((((.((((.........)))).))))))))).))))))))). ( -23.00)
>DroSim_CAF1 46151 120 - 1
AAAGAUAAACAUUAGCAGACUUUAGUUUCGAAAGAAAUGUGAGACAAUUAAAAAAAAGCAAUGGAAAAGAUACAAUGGUGAAGCGAUCAAAGAACUUGCAUUAUCCCAUAAAAGUUUGCG
..............(((((((((.(((((....)))))......................((((............(((((.((((.........)))).))))))))).))))))))). ( -23.00)
>consensus
AAAGAUAAACAUUAGCAGACUUUAGUUUCGAAAGAAAUGUGAGACAAUUAAAAAAAAGCAAUGGAAAAGAUACAAUGGUGAAGCGAUCAAAGAACUUGCAUUAUCCCAUAAAAGUUUGCG
..............(((((((((.(((((....)))))......................((((............(((((.((((.........)))).))))))))).))))))))). (-22.45 = -22.23 +  -0.22) 

alignment

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secondary structure

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dotplot

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Window 4

Location 4,057,324 – 4,057,444
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -21.07
Consensus MFE -21.74
Energy contribution -21.63
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -1.34
Structure conservation index 1.03
SVM decision value 0.21
SVM RNA-class probability 0.636841
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4057324 120 - 20766785
GUUGAAGCUGAAUCUAUUCUAUAUCUAAACUCUUUUACACAAAGAUAAACAUUAGCAGACUUUAGUUUCGAAAGAAAUGUGAGACAAUUAAAAAAAAGCAAUGGAAAGGAUACAAUGGUG
........((.((((.((((((........(((((.....)))))..............(((..(((((....)))))..))).................)))))).)))).))...... ( -17.20)
>DroSec_CAF1 40022 120 - 1
GUUGGAGCUGAAUCUUUUCCAUAUUAAAACUCUUUUACACAAAGAUAAACAUUAGCAGACUUUAGUUUCGAAAGAAAUGUGAGACAAUUAAAAAAAAGCAAUGGAAAAGAUACAAUGGUG
........((.(((((((((((........(((((.....)))))..............(((..(((((....)))))..))).................))))))))))).))...... ( -23.00)
>DroSim_CAF1 46191 120 - 1
GUUGAAGCUGAAUCUUUUCCAUAUUAAAACUCUUUUACACAAAGAUAAACAUUAGCAGACUUUAGUUUCGAAAGAAAUGUGAGACAAUUAAAAAAAAGCAAUGGAAAAGAUACAAUGGUG
........((.(((((((((((........(((((.....)))))..............(((..(((((....)))))..))).................))))))))))).))...... ( -23.00)
>consensus
GUUGAAGCUGAAUCUUUUCCAUAUUAAAACUCUUUUACACAAAGAUAAACAUUAGCAGACUUUAGUUUCGAAAGAAAUGUGAGACAAUUAAAAAAAAGCAAUGGAAAAGAUACAAUGGUG
........((.(((((((((((........(((((.....)))))..............(((..(((((....)))))..))).................))))))))))).))...... (-21.74 = -21.63 +  -0.11) 

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 09:51:13 2006