Locus 106

Sequence ID 3L_DroMel_CAF1
Location 364,101 – 364,193
Length 92
Max. P 0.961385
window149 window150

overview

Window 9

Location 364,101 – 364,193
Length 92
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 77.43
Mean single sequence MFE -25.47
Consensus MFE -17.99
Energy contribution -18.94
Covariance contribution 0.95
Combinations/Pair 1.10
Mean z-score -2.02
Structure conservation index 0.71
SVM decision value 1.53
SVM RNA-class probability 0.961385
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 364101 92 + 23771897
UGGCGAGUU--UUUGCAUCCAUCACGAUUACUCGGACACACGAGGCUUCCAUUUCAAAU--------AGGAACGUGAUGACCAAACGCAAUCCAC------AUCCAAA
..(((.((.--...))...(((((((....((((......))))..((((.........--------.)))))))))))......))).......------....... ( -22.20)
>DroPse_CAF1 21089 94 + 1
UAGCAGGUUCAUUUCCAGCCAUCACGUUUACUCGGACACACGAGGCGUCCAUUCCAAGCAGCUCUGAAGGAACGUGAUAGCCACAA--------A------AUAUAAA
..((.((((.......))))(((((((((.((((......))))((...........))..........))))))))).)).....--------.------....... ( -21.70)
>DroSec_CAF1 18368 92 + 1
UGGCGAGUU--UUUGCAUCCAUCACGUUUACUCGGACACACGAGGCGUCCAUUUCAAAU--------AGGAACGUGAUGGCCAAACGCAAUCCAC------AUCCAAA
(((...((.--((((...(((((((((...((((......))))...(((.........--------.)))))))))))).)))).))...))).------....... ( -25.40)
>DroSim_CAF1 19047 92 + 1
UGGCGAGUU--UUUGCAUCCAUCACGUUUACUCGGACACACUCGGCGUCCAUUUCAAAU--------AGGAACGUGAUGGCCAAACNNNNNNNNN------NNNNNNN
((((..((.--...))...((((((((((....((((.(.....).))))....(....--------.)))))))))))))))............------....... ( -23.50)
>DroEre_CAF1 19647 98 + 1
UGGCGAGUU--GUUGCAUCCAUCACGUUUACUCGGACGCACGAGGCGUCCAUUUCAAAU--------AGGAACGUGAUGGCCAAAGGCAAUCCACAUCCACAUCCAAA
(((...(((--(((....(((((((((((....((((((.....))))))....(....--------.)))))))))))).....))))))))).............. ( -31.40)
>DroYak_CAF1 19744 98 + 1
UGGUGAGCU--GUUGCAUCCAUCACGUUUACUCGGACACACGAGGCGUCCAUUUCAAAU--------AGGAACGUGAUGGCCAAAGGCAAUCUACAUUCACAUCCAAA
..(((((.(--(((((..(((((((((...((((......))))...(((.........--------.))))))))))))......)))....))))))))....... ( -28.60)
>consensus
UGGCGAGUU__UUUGCAUCCAUCACGUUUACUCGGACACACGAGGCGUCCAUUUCAAAU________AGGAACGUGAUGGCCAAACGCAAUCCAC______AUCCAAA
((((..((......))...((((((((...((((......))))...(((..................)))))))))))))))......................... (-17.99 = -18.94 +   0.95) 

alignment

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secondary structure

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dotplot

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Window 0

Location 364,101 – 364,193
Length 92
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 77.43
Mean single sequence MFE -28.60
Consensus MFE -19.30
Energy contribution -19.22
Covariance contribution -0.08
Combinations/Pair 1.17
Mean z-score -1.58
Structure conservation index 0.67
SVM decision value 0.84
SVM RNA-class probability 0.863879
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 364101 92 - 23771897
UUUGGAU------GUGGAUUGCGUUUGGUCAUCACGUUCCU--------AUUUGAAAUGGAAGCCUCGUGUGUCCGAGUAAUCGUGAUGGAUGCAAA--AACUCGCCA
..(((..------((...(((((((....(((((((((((.--------.........))))..((((......))))....)))))))))))))).--.))...))) ( -25.00)
>DroPse_CAF1 21089 94 - 1
UUUAUAU------U--------UUGUGGCUAUCACGUUCCUUCAGAGCUGCUUGGAAUGGACGCCUCGUGUGUCCGAGUAAACGUGAUGGCUGGAAAUGAACCUGCUA
.......------(--------((.(((((((((((((((..((....))...))).(((((((.....))))))).....)))))))))))).)))........... ( -29.80)
>DroSec_CAF1 18368 92 - 1
UUUGGAU------GUGGAUUGCGUUUGGCCAUCACGUUCCU--------AUUUGAAAUGGACGCCUCGUGUGUCCGAGUAAACGUGAUGGAUGCAAA--AACUCGCCA
..(((..------((...((((((....((((((((((..(--------((((.....((((((.....))))))))))))))))))))))))))).--.))...))) ( -31.30)
>DroSim_CAF1 19047 92 - 1
NNNNNNN------NNNNNNNNNGUUUGGCCAUCACGUUCCU--------AUUUGAAAUGGACGCCGAGUGUGUCCGAGUAAACGUGAUGGAUGCAAA--AACUCGCCA
.......------..........((((.((((((((((..(--------((((.....((((((.....)))))))))))))))))))))...))))--......... ( -24.80)
>DroEre_CAF1 19647 98 - 1
UUUGGAUGUGGAUGUGGAUUGCCUUUGGCCAUCACGUUCCU--------AUUUGAAAUGGACGCCUCGUGCGUCCGAGUAAACGUGAUGGAUGCAAC--AACUCGCCA
........(((..((...((((......((((((((((..(--------((((.....((((((.....)))))))))))))))))))))..)))).--.))...))) ( -31.30)
>DroYak_CAF1 19744 98 - 1
UUUGGAUGUGAAUGUAGAUUGCCUUUGGCCAUCACGUUCCU--------AUUUGAAAUGGACGCCUCGUGUGUCCGAGUAAACGUGAUGGAUGCAAC--AGCUCACCA
.......((((.(((....(((......((((((((((..(--------((((.....((((((.....)))))))))))))))))))))..)))))--)..)))).. ( -29.40)
>consensus
UUUGGAU______GUGGAUUGCGUUUGGCCAUCACGUUCCU________AUUUGAAAUGGACGCCUCGUGUGUCCGAGUAAACGUGAUGGAUGCAAA__AACUCGCCA
............................((((((((((.(.............)...(((((((.....)))))))....)))))))))).................. (-19.30 = -19.22 +  -0.08) 

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 09:32:35 2006