Locus 9280

Sequence ID 3R_DroMel_CAF1
Location 24,737,070 – 24,737,213
Length 143
Max. P 0.997304
window14838 window14839

overview

Window 8

Location 24,737,070 – 24,737,178
Length 108
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 96.03
Mean single sequence MFE -31.99
Consensus MFE -29.58
Energy contribution -29.98
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.92
SVM decision value 2.83
SVM RNA-class probability 0.997304
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24737070 108 + 27905053
CGGUUUCUGUACUUUCCCUCGCUUUGCUAAUUUCUGUUG-GUUGGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAG
.((.....((((........(((..((((((....))))-)).)))..........))))..))....(((((((..((((((((....))))))))..)))))))... ( -33.47)
>DroSec_CAF1 11626 108 + 1
CGUUUUCUGUACUUUCCCUCGCUUUGCUAAUUUCUGUUG-GUUGGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAUAGCAG
.................................((((((-(...(((.(((((...((((.....)))).))))).)))((((((....))))))....)))))))... ( -29.90)
>DroSim_CAF1 11984 108 + 1
CGUUUUCUGUACUUUCCCUCGCUUUGCUAAUUUCUGUUG-GUUGGCCCCCAAGUCUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAG
........((((........(((..((((((....))))-)).)))..........))))...(((..(((((((..((((((((....))))))))..)))))))))) ( -32.97)
>DroEre_CAF1 21308 104 + 1
CGGUUUCUGUACUUUCCCUCGCUUUGCUAAUUUCAGUU-----GGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAG
......((((.(((.....(((((..(((((....)))-----)(((.(((((...((((.....)))).))))).))).........)..))))).....))).)))) ( -31.30)
>DroYak_CAF1 10646 109 + 1
CGGUUUCUGUACUUUCCCUCGCUUUGCUAAUUUCAGUUGUGAUGGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAG
......((((.....((.((((...(((......))).)))).))...........((((.....))))((((((..((((((((....))))))))..)))))))))) ( -32.30)
>consensus
CGGUUUCUGUACUUUCCCUCGCUUUGCUAAUUUCUGUUG_GUUGGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAG
......((((.(((.....(((((..(((((....)))).....(((.(((((...((((.....)))).))))).))).........)..))))).....))).)))) (-29.58 = -29.98 +   0.40)

alignment

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secondary structure

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dotplot

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Window 9

Location 24,737,109 – 24,737,213
Length 104
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 82.46
Mean single sequence MFE -28.99
Consensus MFE -20.97
Energy contribution -22.55
Covariance contribution 1.58
Combinations/Pair 1.12
Mean z-score -1.87
Structure conservation index 0.72
SVM decision value 0.39
SVM RNA-class probability 0.715267
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24737109 104 + 27905053
-GUUGGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAGAGGCACUUAUUGCUUACCUCCAACCUUAGAAUAUC
-(((((.....((((........(((.(.(((((((..((((((((....))))))))..))))))).).)))........))))....)))))........... ( -34.79)
>DroSec_CAF1 11665 104 + 1
-GUUGGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAUAGCAGAGGCACUUAUUGCUUACCUCCAACCUCAGAAUCUC
-(((((.....((((........(((.(.((.((((..((((((((....))))))))..)))).)).).)))........))))....)))))........... ( -28.59)
>DroSim_CAF1 12023 104 + 1
-GUUGGCCCCCAAGUCUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAGAGGCACUUAUUGCUUACCUCCAACCUUAGAAUCUC
-(((((.....((((..(((...(((.(.(((((((..((((((((....))))))))..))))))).).)))....))).))))....)))))........... ( -34.30)
>DroEre_CAF1 21346 101 + 1
----GGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAGAGGCACUUAUUGCUUACCUCCAACAUUAGAAUAUC
----((.....((((........(((.(.(((((((..((((((((....))))))))..))))))).).)))........))))....)).............. ( -30.49)
>DroYak_CAF1 10685 105 + 1
UGAUGGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAGAGGCACUUAAUGCUUAGCUCCAACCUUAGAAUCUC
.(((.(((.(((((...((((.....)))).))))).)))((((((....))))))........((((..(((((.....))))).))))..........))).. ( -31.70)
>DroPer_CAF1 12670 82 + 1
----------CGAGUUUGUACUUCCUGUACUUUU-GUGGCCUUUCAAGUGUGAAACAUCCACAGCCCCAAAAACACCUCUUUCUGAU------------GAUUGG
----------.(((...((((.....))))..((-((((..(((((....)))))...))))))............)))........------------...... ( -14.10)
>consensus
_GUUGGCCCCCAAGUUUGUACUUCCUGUACUCUUGGUGGCGUUUCAAGUGUGAAGCGUUCCCAAGAGCAGAGGCACUUAUUGCUUACCUCCAACCUUAGAAUCUC
.....(((...((((....)))).(((..(((((((..((((((((....))))))))..)))))))))).)))............................... (-20.97 = -22.55 +   1.58)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:30:37 2006