Locus 5582

Sequence ID 2L_DroMel_CAF1
Location 15,848,171 – 15,848,370
Length 199
Max. P 0.968689
window8859 window8860 window8861 window8862 window8863

overview

Window 9

Location 15,848,171 – 15,848,279
Length 108
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 97.69
Mean single sequence MFE -39.75
Consensus MFE -37.51
Energy contribution -37.58
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -2.66
Structure conservation index 0.94
SVM decision value 1.44
SVM RNA-class probability 0.953953
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15848171 108 - 22407834
CUAAGUAACGCUCUCUGGGAACUUCAUGAAGUGAGCAACUUUGGAGUGGCCCCGGGGUGCAAUGAUGCCAUCAAAAUUGGCGCUGCAACAAGCGGCGGAACAAAGAGU
....((..(((.(((((((.((((((..((((.....))))))))))...))))))).))......((((.......))))(((((.....))))))..))....... ( -38.40)
>DroSec_CAF1 20429 108 - 1
CUAAGUAACGCUCUCCGGGAACUUCUUGAAGUGAGCAACUUUGGAGUGGCCCCGGGGUGCAAUGAUGCCAUCAAAAUUGGCGCUGCAACAAGCGGCGGAACAAAGAGU
....((..(((.(((((((.(((((..(((((.....))))))))))...))))))).))......((((.......))))(((((.....))))))..))....... ( -40.30)
>DroSim_CAF1 20823 108 - 1
CUAAGUAACGCUCUCCGGGAACUUCUUGAAGUGAGCAACUUUGGAGUGGCCCCGGGGUGCAAUGAUGCCAUCAAAAUUGGCGCUGCAACAAGCGGCGGAACAAAGAGU
....((..(((.(((((((.(((((..(((((.....))))))))))...))))))).))......((((.......))))(((((.....))))))..))....... ( -40.30)
>DroEre_CAF1 5394 108 - 1
CUAAGUAACGCUCUCCGGGAACUUCUUGAAGUGAGCAACUUUGGAGUGGCCCCGGGGUGCAAUGAUGGCAUCAAAAUUGGCGCUGCAACAAGCGGCGAAACAAAGAGC
.........((((((((((.(((((..(((((.....))))))))))...)))))(((((.......)))))....(((.((((((.....))))))...)))))))) ( -40.00)
>consensus
CUAAGUAACGCUCUCCGGGAACUUCUUGAAGUGAGCAACUUUGGAGUGGCCCCGGGGUGCAAUGAUGCCAUCAAAAUUGGCGCUGCAACAAGCGGCGGAACAAAGAGU
....((..(((.(((((((.(((((..(((((.....))))))))))...))))))).))......((((.......))))(((((.....))))))..))....... (-37.51 = -37.58 +   0.06)

alignment

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secondary structure

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Window 0

Location 15,848,211 – 15,848,315
Length 104
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 97.60
Mean single sequence MFE -33.20
Consensus MFE -31.60
Energy contribution -32.10
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.95
SVM decision value 0.14
SVM RNA-class probability 0.601464
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15848211 104 + 22407834
GCAUCAUUGCACCCCGGGGCCACUCCAAAGUUGCUCACUUCAUGAAGUUCCCAGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCG
(((....))).......(((((......(((((...((((....)))).......(((((((.....))))))))))))..((((....)))).....))))). ( -30.40)
>DroSec_CAF1 20469 103 + 1
GCAUCAUUGCACCCCGGGGCCACUCCAAAGUUGCUCACUUCAAGAAGUUCCCGGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGU-AGUUCUUGGCCG
(((....)))...(((((((.(((....))).))..((((....)))).))))).(((((((.....))))))).........(((((((.-...))))))).. ( -35.60)
>DroSim_CAF1 20863 104 + 1
GCAUCAUUGCACCCCGGGGCCACUCCAAAGUUGCUCACUUCAAGAAGUUCCCGGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCG
(((....)))...(((((((.(((....))).))..((((....)))).))))).(((((((.....))))))).........(((((((.....))))))).. ( -34.70)
>DroEre_CAF1 5434 104 + 1
CCAUCAUUGCACCCCGGGGCCACUCCAAAGUUGCUCACUUCAAGAAGUUCCCGGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCG
...((........(((((((.(((....))).))..((((....)))).))))).(((((((.....))))))).))......(((((((.....))))))).. ( -32.10)
>consensus
GCAUCAUUGCACCCCGGGGCCACUCCAAAGUUGCUCACUUCAAGAAGUUCCCGGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCG
(((....)))...(((((((.(((....))).))..((((....)))).))))).(((((((.....))))))).........(((((((.....))))))).. (-31.60 = -32.10 +   0.50)

alignment

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secondary structure

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Window 1

Location 15,848,246 – 15,848,355
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 95.41
Mean single sequence MFE -33.08
Consensus MFE -31.88
Energy contribution -31.75
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -2.18
Structure conservation index 0.96
SVM decision value 1.63
SVM RNA-class probability 0.968689
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15848246 109 + 22407834
CACUUCAUGAAGUUCCCAGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCGUCACAACAACAGGGGUAAUCAAGACACAAAGUUUUGUGUU
.......(((...((((.(.(((((((.....))))))))(((.....(((((((.....))))))).))).........))))...))).(((((((....))))))) ( -33.70)
>DroSec_CAF1 20504 108 + 1
CACUUCAAGAAGUUCCCGGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGU-AGUUCUUGGCCGUCACAACAACAGGGGUGAUCAAAACACAAAGUUUUGUGUU
........((...((((.(.(((((((.....))))))))(((.....(((((((.-...))))))).))).........))))...))..(((((((....))))))) ( -33.20)
>DroSim_CAF1 20898 109 + 1
CACUUCAAGAAGUUCCCGGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCGUCACAACAACAGGGGUAAUCAAAACACAAAGUUUUGUGUU
........((...((((.(.(((((((.....))))))))(((.....(((((((.....))))))).))).........))))...))..(((((((....))))))) ( -32.30)
>DroEre_CAF1 5469 109 + 1
CACUUCAAGAAGUUCCCGGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCGUCACAAGAACAGGGGUAAUCAAAACACAGCGUUUUGUGCU
.((((....)))).(((.(.(((((((.....))))))))......((((....))))(((((((.......))))))).)))(((..((((((.....))))))))). ( -33.10)
>consensus
CACUUCAAGAAGUUCCCGGAGAGCGUUACUUAGACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCGUCACAACAACAGGGGUAAUCAAAACACAAAGUUUUGUGUU
........((...((((.(.(((((((.....))))))))(((.....(((((((.....))))))).))).........))))...))..(((((((....))))))) (-31.88 = -31.75 +  -0.12)

alignment

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secondary structure

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Window 2

Location 15,848,279 – 15,848,370
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 94.51
Mean single sequence MFE -25.05
Consensus MFE -22.83
Energy contribution -22.70
Covariance contribution -0.13
Combinations/Pair 1.08
Mean z-score -2.16
Structure conservation index 0.91
SVM decision value 1.39
SVM RNA-class probability 0.949623
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15848279 91 + 22407834
ACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCGUCACAACAACAGGGGUAAUCAAGACACAAAGUUUUGUGUUGAAUAUGGAGAAAUG
...(((((((.....(((((((.....))))))).))).(((((((....))...((((((.....))))))))))).....))))..... ( -23.70)
>DroSec_CAF1 20537 90 + 1
ACGCUCCGACUAAUUGCCAAGGU-AGUUCUUGGCCGUCACAACAACAGGGGUGAUCAAAACACAAAGUUUUGUGUUGAAUAUGGAGAAAAU
...(((((.......(((((((.-...))))))).(((((..(....)..)))))...(((((((....))))))).....)))))..... ( -26.80)
>DroSim_CAF1 20931 91 + 1
ACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCGUCACAACAACAGGGGUAAUCAAAACACAAAGUUUUGUGUUGAAUAUGGAGAAAAU
...(((((((.....(((((((.....))))))).))).(((((((....))...((((((.....))))))))))).....))))..... ( -23.60)
>DroEre_CAF1 5502 91 + 1
ACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCGUCACAAGAACAGGGGUAAUCAAAACACAGCGUUUUGUGCUGAAUAUGGAGAAAAU
...((((((((..((((....))))(((((((.......)))))))...)))..........(((((.....)))))....)))))..... ( -26.10)
>consensus
ACGCUCCGACUAAUUGCCAAGGCAAGUUCUUGGCCGUCACAACAACAGGGGUAAUCAAAACACAAAGUUUUGUGUUGAAUAUGGAGAAAAU
...(((((((.....(((((((.....))))))).)))............(((.(((..((((((....))))))))).)))))))..... (-22.83 = -22.70 +  -0.13)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,848,279 – 15,848,370
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 94.51
Mean single sequence MFE -23.88
Consensus MFE -22.51
Energy contribution -22.58
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -2.06
Structure conservation index 0.94
SVM decision value 1.46
SVM RNA-class probability 0.956064
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15848279 91 - 22407834
CAUUUCUCCAUAUUCAACACAAAACUUUGUGUCUUGAUUACCCCUGUUGUUGUGACGGCCAAGAACUUGCCUUGGCAAUUAGUCGGAGCGU
.....((((.((.(((((((((....))))))..))).)).............(((.((((((.......)))))).....)))))))... ( -22.90)
>DroSec_CAF1 20537 90 - 1
AUUUUCUCCAUAUUCAACACAAAACUUUGUGUUUUGAUCACCCCUGUUGUUGUGACGGCCAAGAACU-ACCUUGGCAAUUAGUCGGAGCGU
.....(((((((..(((((((((((.....))))))........))))).)))(((.((((((....-..)))))).....)))))))... ( -24.50)
>DroSim_CAF1 20931 91 - 1
AUUUUCUCCAUAUUCAACACAAAACUUUGUGUUUUGAUUACCCCUGUUGUUGUGACGGCCAAGAACUUGCCUUGGCAAUUAGUCGGAGCGU
.....(((((((..(((((((((((.....))))))........))))).)))(((.((((((.......)))))).....)))))))... ( -24.00)
>DroEre_CAF1 5502 91 - 1
AUUUUCUCCAUAUUCAGCACAAAACGCUGUGUUUUGAUUACCCCUGUUCUUGUGACGGCCAAGAACUUGCCUUGGCAAUUAGUCGGAGCGU
.....((((......((((((......))))))..(((((.....(((((((.(....))))))))((((....)))).)))))))))... ( -24.10)
>consensus
AUUUUCUCCAUAUUCAACACAAAACUUUGUGUUUUGAUUACCCCUGUUGUUGUGACGGCCAAGAACUUGCCUUGGCAAUUAGUCGGAGCGU
.....((((....(((((((((....))))))..)))................(((.((((((.......)))))).....)))))))... (-22.51 = -22.58 +   0.06)

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 11:47:50 2006