Locus 6263

Sequence ID 2L_DroMel_CAF1
Location 17,404,023 – 17,404,159
Length 136
Max. P 0.713522
window10009 window10010 window10011

overview

Window 9

Location 17,404,023 – 17,404,119
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 82.92
Mean single sequence MFE -25.98
Consensus MFE -21.54
Energy contribution -22.82
Covariance contribution 1.28
Combinations/Pair 1.19
Mean z-score -1.65
Structure conservation index 0.83
SVM decision value 0.38
SVM RNA-class probability 0.713522
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17404023 96 - 22407834
ACUCCUGGAGUUCCUUAUUUGUGGCUUGUUGGGCAUCCAACUGGGAGGUGGCUGCUUGGAGUUUUUCCUCCAACACCUUUACUAGUUCCUCUACUU
.(((((.((((..(......)..))))(((((....))))).)))))..((.((.((((((......))))))))))................... ( -26.60)
>DroPse_CAF1 30560 96 - 1
UCUGCAGGAGUUCCUUGUUUUCAGCCUGUUGGGUAUCCAACUGGACCGUGGUUUCAGCUAGUCUUGCCUCCAAUACUUUAACAAGUUCUUUCUUCU
...((((((.(...(((...(((.((.(((((....))))).))....)))...)))..).))))))............................. ( -17.90)
>DroSec_CAF1 25869 96 - 1
ACUCCUGGAGUUUCUUAUUUGUGGCUUGUUGGGACUCCAACUGGGAGGUGGCUGCUUGGAGUUUUUCCUCCAACACCUUUACUAGUUCCUCAACUU
......(((((..(................)..)))))((((((((((((.....((((((......))))))))))))..))))))......... ( -27.99)
>DroSim_CAF1 23675 96 - 1
ACUCCUGGAGUUUCUUAUGUGUGGCUUGUUGGGACUCCAACUGGGAGGUAGCUGCUUGGAGUUUUUCCUCCAACACCUUUACUAGUUCCUCAACUU
...((((((((..(....(.....).....)..))))))...))((((.(((((.((((((......)))))).........)))))))))..... ( -25.50)
>DroEre_CAF1 28195 96 - 1
ACUCCCGGAGUUCCCUAUUUUCCGCUUGUUGGGACUCCAACUGGGAGGUGGCGGCUUGGAGCUUUUCCUCUAACACCUUAACUAGUUCCUCCACUU
.((((((((((.(((...............))))))))....)))))((((.((.((((((......))))))...((.....))..)).)))).. ( -29.66)
>DroYak_CAF1 26457 96 - 1
ACUCCUGGAGUUCCCUAUUUUCCGCUUGCUGGGACUCUAACUGGGAGGUGGCUGCUUGGAGUUUAUCCUCCAACACCUUAACUAGUUCCUCCACUU
.....(((((.((((...............))))....((((((((((((.....((((((......))))))))))))..)))))).)))))... ( -28.26)
>consensus
ACUCCUGGAGUUCCUUAUUUGCGGCUUGUUGGGACUCCAACUGGGAGGUGGCUGCUUGGAGUUUUUCCUCCAACACCUUAACUAGUUCCUCCACUU
......((((((((................))))))))((((((((((((.....((((((......))))))))))))..))))))......... (-21.54 = -22.82 +   1.28)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,404,040 – 17,404,159
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 82.02
Mean single sequence MFE -31.81
Consensus MFE -21.85
Energy contribution -22.93
Covariance contribution 1.09
Combinations/Pair 1.20
Mean z-score -1.50
Structure conservation index 0.69
SVM decision value 0.07
SVM RNA-class probability 0.568674
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17404040 119 + 22407834
AAGGUGUUGGAGGAAAAACUCCAAGCAGCCACCUCCCAGUUGGAUGCCCAACAAGCCACAAAUAAGGAACUCCAGGAGUUGCUGGUUAAAUCUCAAGAAAACGAGGGAAAUCUGCAAGG
..(((.((((((......))))))...)))..((((..(((((....))))).............((....)).))))((((.((((...((((........))))..)))).)))).. ( -35.20)
>DroPse_CAF1 30577 119 + 1
AAAGUAUUGGAGGCAAGACUAGCUGAAACCACGGUCCAGUUGGAUACCCAACAGGCUGAAAACAAGGAACUCCUGCAGAAACUCGAACAGACCCAGCAAAAGGAGGGAGUCCUACAGGA
..(((.(((....))).)))..(((......(((((..(((((....))))).)))))......((((.(((((........((.....)).((.......)).))))))))).))).. ( -27.90)
>DroSec_CAF1 25886 119 + 1
AAGGUGUUGGAGGAAAAACUCCAAGCAGCCACCUCCCAGUUGGAGUCCCAACAAGCCACAAAUAAGAAACUCCAGGAGUUGCUGGUUAAAUCUCAAGAAAACGAGGGAAAUCUGCAAGG
..(((.((((((......))))))...)))..((((....((((((..(................)..))))))))))((((.((((...((((........))))..)))).)))).. ( -31.89)
>DroSim_CAF1 23692 119 + 1
AAGGUGUUGGAGGAAAAACUCCAAGCAGCUACCUCCCAGUUGGAGUCCCAACAAGCCACACAUAAGAAACUCCAGGAGUUGCUGGUUAAAUCUCAAGAAAACGAGGGAAAUCUGCAAGG
......((((((......))))))((((.....((((.(((((....))))).(((((.........(((((...)))))..))))).................))))...)))).... ( -31.40)
>DroEre_CAF1 28212 119 + 1
AAGGUGUUAGAGGAAAAGCUCCAAGCCGCCACCUCCCAGUUGGAGUCCCAACAAGCGGAAAAUAGGGAACUCCGGGAGUUGCUGUUAAAAUCGCAAGAGAACGAGGGAAAUCUGCAAGG
..((((.....(((.....)))....))))..(((((....((((((((...............))).))))))))))((((.(((....((....)).)))((......)).)))).. ( -32.36)
>DroYak_CAF1 26474 119 + 1
AAGGUGUUGGAGGAUAAACUCCAAGCAGCCACCUCCCAGUUAGAGUCCCAGCAAGCGGAAAAUAGGGAACUCCAGGAGUUGCUGGUGAAAUCUCAAGAGAAAGAGGGAAAUUUACAAGG
..(((.((((((......))))))...)))...((((........(((((((((.(.......((....))......)))))))).))..(((....)))....))))........... ( -32.12)
>consensus
AAGGUGUUGGAGGAAAAACUCCAAGCAGCCACCUCCCAGUUGGAGUCCCAACAAGCCAAAAAUAAGGAACUCCAGGAGUUGCUGGUUAAAUCUCAAGAAAACGAGGGAAAUCUGCAAGG
..(((.((((((......))))))...)))...((((.(((((....)))))............((.(((((...))))).)).....................))))........... (-21.85 = -22.93 +   1.09)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,404,040 – 17,404,159
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 82.02
Mean single sequence MFE -32.68
Consensus MFE -23.05
Energy contribution -23.47
Covariance contribution 0.43
Combinations/Pair 1.40
Mean z-score -1.44
Structure conservation index 0.71
SVM decision value 0.07
SVM RNA-class probability 0.566304
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17404040 119 - 22407834
CCUUGCAGAUUUCCCUCGUUUUCUUGAGAUUUAACCAGCAACUCCUGGAGUUCCUUAUUUGUGGCUUGUUGGGCAUCCAACUGGGAGGUGGCUGCUUGGAGUUUUUCCUCCAACACCUU
....((((......((((......))))......(((....(((((.((((..(......)..))))(((((....))))).))))).)))))))((((((......))))))...... ( -33.40)
>DroPse_CAF1 30577 119 - 1
UCCUGUAGGACUCCCUCCUUUUGCUGGGUCUGUUCGAGUUUCUGCAGGAGUUCCUUGUUUUCAGCCUGUUGGGUAUCCAACUGGACCGUGGUUUCAGCUAGUCUUGCCUCCAAUACUUU
(((((((((((((...(((......))).......))).))))))))))...............((.(((((....))))).))....(((.....((.......))..)))....... ( -29.20)
>DroSec_CAF1 25886 119 - 1
CCUUGCAGAUUUCCCUCGUUUUCUUGAGAUUUAACCAGCAACUCCUGGAGUUUCUUAUUUGUGGCUUGUUGGGACUCCAACUGGGAGGUGGCUGCUUGGAGUUUUUCCUCCAACACCUU
....(((((((((((..(((....(((((.....((((......))))....))))).....)))..(((((....))))).)))))))..))))((((((......))))))...... ( -33.70)
>DroSim_CAF1 23692 119 - 1
CCUUGCAGAUUUCCCUCGUUUUCUUGAGAUUUAACCAGCAACUCCUGGAGUUUCUUAUGUGUGGCUUGUUGGGACUCCAACUGGGAGGUAGCUGCUUGGAGUUUUUCCUCCAACACCUU
....(((((((((((..(((..(.(((((.....((((......))))....))))).)...)))..(((((....))))).)))))))..))))((((((......))))))...... ( -33.90)
>DroEre_CAF1 28212 119 - 1
CCUUGCAGAUUUCCCUCGUUCUCUUGCGAUUUUAACAGCAACUCCCGGAGUUCCCUAUUUUCCGCUUGUUGGGACUCCAACUGGGAGGUGGCGGCUUGGAGCUUUUCCUCUAACACCUU
....((..(((((((((((......)))).................(((((.(((...............))))))))....))))))).))((.((((((......))))))..)).. ( -32.36)
>DroYak_CAF1 26474 119 - 1
CCUUGUAAAUUUCCCUCUUUCUCUUGAGAUUUCACCAGCAACUCCUGGAGUUCCCUAUUUUCCGCUUGCUGGGACUCUAACUGGGAGGUGGCUGCUUGGAGUUUAUCCUCCAACACCUU
........(((((((((((......))))..((.(((((((....(((((.........))))).)))))))))........)))))))((.((.((((((......)))))))))).. ( -33.50)
>consensus
CCUUGCAGAUUUCCCUCGUUUUCUUGAGAUUUAACCAGCAACUCCUGGAGUUCCUUAUUUGCGGCUUGUUGGGACUCCAACUGGGAGGUGGCUGCUUGGAGUUUUUCCUCCAACACCUU
......(((((((............)))))))...((((..(((((((((((((................))))))))....)))))...)))).((((((......))))))...... (-23.05 = -23.47 +   0.43)

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 12:06:45 2006