Locus 726

Sequence ID 2L_DroMel_CAF1
Location 2,099,193 – 2,099,290
Length 97
Max. P 0.808973
window1191 window1192

overview

Window 1

Location 2,099,193 – 2,099,290
Length 97
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 82.13
Mean single sequence MFE -32.30
Consensus MFE -22.33
Energy contribution -22.55
Covariance contribution 0.22
Combinations/Pair 1.21
Mean z-score -2.28
Structure conservation index 0.69
SVM decision value 0.64
SVM RNA-class probability 0.808973
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2099193 97 + 22407834
UUGU--------ACACGGCCAAAAGGGCUGGCAUUAGAGCCAUCAACGCGG--CC-CGAUUGCAUGUUUGGGCCACAUUUUGGCCUAGCUCUACUACACACA---UCACAC
....--------....((((((((.((.((((......))))))...(.((--((-(((........))))))).).)))))))).................---...... ( -31.90)
>DroSec_CAF1 116264 97 + 1
UUGU--------AAACGGCCAAAAGGGCUGGCAUUAGAGCCAUCAACGCGG--CC-CGAUUGCAUGUUUGGGCCACAUUUUGGCCUAGCUCUACUACACACA---UCACAC
....--------....((((((((.((.((((......))))))...(.((--((-(((........))))))).).)))))))).................---...... ( -31.90)
>DroSim_CAF1 116140 97 + 1
UUGU--------ACACGGCCAAAAGGGCUGGCAUUAGAGCCAUCAACGCGG--CC-CGAUUGCAUGUUUGGGCCACAUUUUGGCCUAGCUCUACUACACACA---UCACAC
....--------....((((((((.((.((((......))))))...(.((--((-(((........))))))).).)))))))).................---...... ( -31.90)
>DroEre_CAF1 118895 100 + 1
UUGU--------ACAUGGCCAAAAGGGCUGGCAUUAGAGCCAUCAACGCGG--CC-CGAUUGCAUGUUUGGGCCACAUUUUGGCCUAGCUCCACUGUACACAGGCUUACAC
.(((--------(((.((((.....))))((..((((.((((.....(.((--((-(((........))))))).)....))))))))..))..))))))........... ( -35.30)
>DroAna_CAF1 120012 103 + 1
UUUUUACAUACAACAUGGCCAAAAGCGUCGGCAUUAAAGCCAUCAACGCGA--CUGCGAUUGCAUGUAUGGGCCACAUUUUGGCCUAGUCCUA---GGCCUA---GAACAC
................((((....((((.(((......)))....))))((--((((....)))....(((((((.....))))))))))...---))))..---...... ( -31.30)
>DroPer_CAF1 171449 98 + 1
UUGU--------UUACGGCCCAAAGCGGCGGCAUUAAAGCCAUCAACGUGGAGCU-CCAUUGCAUGUUUGGGCCACAUUCUGGCCUAGGUCUAGAGCACACACA----CAC
....--------....((((((((...(((((......)))......((((....-)))).))...))))))))...(((((((....).))))))........----... ( -31.50)
>consensus
UUGU________ACACGGCCAAAAGGGCUGGCAUUAGAGCCAUCAACGCGG__CC_CGAUUGCAUGUUUGGGCCACAUUUUGGCCUAGCUCUACUACACACA___UCACAC
................((((((((.(((((((......)))......((((........)))).......))))...)))))))).......................... (-22.33 = -22.55 +   0.22)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,099,193 – 2,099,290
Length 97
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 82.13
Mean single sequence MFE -35.52
Consensus MFE -20.92
Energy contribution -20.45
Covariance contribution -0.47
Combinations/Pair 1.24
Mean z-score -2.11
Structure conservation index 0.59
SVM decision value 0.09
SVM RNA-class probability 0.579347
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2099193 97 - 22407834
GUGUGA---UGUGUGUAGUAGAGCUAGGCCAAAAUGUGGCCCAAACAUGCAAUCG-GG--CCGCGUUGAUGGCUCUAAUGCCAGCCCUUUUGGCCGUGU--------ACAA
......---((((..(((.....)).((((((((((((((((............)-))--)))))))..((((......))))......)))))))..)--------))). ( -36.00)
>DroSec_CAF1 116264 97 - 1
GUGUGA---UGUGUGUAGUAGAGCUAGGCCAAAAUGUGGCCCAAACAUGCAAUCG-GG--CCGCGUUGAUGGCUCUAAUGCCAGCCCUUUUGGCCGUUU--------ACAA
.(((((---......(((.....)))((((((((((((((((............)-))--)))))))..((((......))))......))))))..))--------))). ( -36.30)
>DroSim_CAF1 116140 97 - 1
GUGUGA---UGUGUGUAGUAGAGCUAGGCCAAAAUGUGGCCCAAACAUGCAAUCG-GG--CCGCGUUGAUGGCUCUAAUGCCAGCCCUUUUGGCCGUGU--------ACAA
......---((((..(((.....)).((((((((((((((((............)-))--)))))))..((((......))))......)))))))..)--------))). ( -36.00)
>DroEre_CAF1 118895 100 - 1
GUGUAAGCCUGUGUACAGUGGAGCUAGGCCAAAAUGUGGCCCAAACAUGCAAUCG-GG--CCGCGUUGAUGGCUCUAAUGCCAGCCCUUUUGGCCAUGU--------ACAA
.((((((((..(.....)..).))).((((((((((((((((............)-))--)))))))..((((......))))......))))))...)--------))). ( -38.80)
>DroAna_CAF1 120012 103 - 1
GUGUUC---UAGGCC---UAGGACUAGGCCAAAAUGUGGCCCAUACAUGCAAUCGCAG--UCGCGUUGAUGGCUUUAAUGCCGACGCUUUUGGCCAUGUUGUAUGUAAAAA
......---..((((---((....))))))..(((((((((......(((....))).--..(((((...(((......))))))))....)))))))))........... ( -35.50)
>DroPer_CAF1 171449 98 - 1
GUG----UGUGUGUGCUCUAGACCUAGGCCAGAAUGUGGCCCAAACAUGCAAUGG-AGCUCCACGUUGAUGGCUUUAAUGCCGCCGCUUUGGGCCGUAA--------ACAA
...----.(((.(.((((((......(((((.....)))))...........)))-))).))))(((.(((((((....((....))...))))))).)--------)).. ( -30.53)
>consensus
GUGUGA___UGUGUGUAGUAGAGCUAGGCCAAAAUGUGGCCCAAACAUGCAAUCG_GG__CCGCGUUGAUGGCUCUAAUGCCAGCCCUUUUGGCCGUGU________ACAA
..........................(((((((((((((.....................)))))))..((((......))))......))))))................ (-20.92 = -20.45 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:02 2006