Locus 3055

Sequence ID 2R_DroMel_CAF1
Location 10,519,159 – 10,519,253
Length 94
Max. P 0.994185
window5031 window5032

overview

Window 1

Location 10,519,159 – 10,519,253
Length 94
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 78.10
Mean single sequence MFE -33.26
Consensus MFE -18.02
Energy contribution -18.48
Covariance contribution 0.46
Combinations/Pair 1.10
Mean z-score -2.87
Structure conservation index 0.54
SVM decision value 1.90
SVM RNA-class probability 0.981787
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10519159 94 + 20766785
ACUCACCAGUCGGUUCAGUU----UUC--GACUGUUUUAUUUAUUUGGUUAAUUAUGGCCGCUAGGUGCGGCUGUGCCGCCUGCGGCCU------UGGGGCAAAUA
......(((((((.......----.))--))))).......((((((.((......((((((..((.(((((...))))))))))))).------..)).)))))) ( -34.70)
>DroSec_CAF1 20411 94 + 1
ACUCAGCAGUCGGUUCAGUU----UUC--GACUGUUUUAUUUAUUUGGUUAAUUAUGGCCGCUAGGUGCGGCUGUGCCGCCUGCGGCCU------UGGGGCAAAUA
....(((((((((.......----.))--))))))).....((((((.((......((((((..((.(((((...))))))))))))).------..)).)))))) ( -36.80)
>DroSim_CAF1 15576 94 + 1
ACUCACCAGUCGGUUCAGUU----UUC--GACUGUUUUAUUUAUUUGGUUAAUUAUGGCCGCUAGGUGCGGCUGUGCCGCCUGCGGCCU------UGGGGCAAAUA
......(((((((.......----.))--))))).......((((((.((......((((((..((.(((((...))))))))))))).------..)).)))))) ( -34.70)
>DroEre_CAF1 22151 89 + 1
ACCCACCAA---------------UUC--GACUGUUUUAUUUAUUUGGUUAAUUAUGGCCGCUAGGUGCGGCUGUGCCGCCUGCCGCCUGCGGCCUGGGGCAAAUA
.((((((((---------------...--...............))))).......((((((.(((((((((......))).).))))))))))).)))....... ( -33.37)
>DroWil_CAF1 36203 87 + 1
AUACACUAGUAUGUUGGGUACGUACUAGUAUAUAUUUUAUUUAUUUGGUUAAUUAUGGGCGCAAAGCGCGCGUGUUAC-------------------AGGCAAAUA
(((.((((((((((.....)))))))))).)))........((((((.((...((((.((((...)))).))))....-------------------)).)))))) ( -25.50)
>DroYak_CAF1 20630 94 + 1
ACCCAGCAGUCAGUUCGGUU----UUC--GACUGUUUUAUUUAUUUGGUUAAUUAUGGCCGCUAGGUGCGGCUGUGCCGCCUGCGGCCU------CGGGGCAAAUA
.((((((((((.........----...--)))))))....................((((((..((.(((((...))))))))))))).------.)))....... ( -34.50)
>consensus
ACUCACCAGUCGGUUCAGUU____UUC__GACUGUUUUAUUUAUUUGGUUAAUUAUGGCCGCUAGGUGCGGCUGUGCCGCCUGCGGCCU______UGGGGCAAAUA
.........................................((((((.((....((((((((.....))))))))((((....))))..........)).)))))) (-18.02 = -18.48 +   0.46)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,519,159 – 10,519,253
Length 94
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 78.10
Mean single sequence MFE -29.59
Consensus MFE -15.26
Energy contribution -16.30
Covariance contribution 1.05
Combinations/Pair 1.15
Mean z-score -3.58
Structure conservation index 0.52
SVM decision value 2.46
SVM RNA-class probability 0.994185
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10519159 94 - 20766785
UAUUUGCCCCA------AGGCCGCAGGCGGCACAGCCGCACCUAGCGGCCAUAAUUAACCAAAUAAAUAAAACAGUC--GAA----AACUGAACCGACUGGUGAGU
.(((..(....------.(((((((((((((...)))))..)).))))))......................(((((--(..----........)))))))..))) ( -31.90)
>DroSec_CAF1 20411 94 - 1
UAUUUGCCCCA------AGGCCGCAGGCGGCACAGCCGCACCUAGCGGCCAUAAUUAACCAAAUAAAUAAAACAGUC--GAA----AACUGAACCGACUGCUGAGU
((((((.....------.(((((((((((((...)))))..)).)))))).........)))))).......(((((--(..----........))))))...... ( -29.46)
>DroSim_CAF1 15576 94 - 1
UAUUUGCCCCA------AGGCCGCAGGCGGCACAGCCGCACCUAGCGGCCAUAAUUAACCAAAUAAAUAAAACAGUC--GAA----AACUGAACCGACUGGUGAGU
.(((..(....------.(((((((((((((...)))))..)).))))))......................(((((--(..----........)))))))..))) ( -31.90)
>DroEre_CAF1 22151 89 - 1
UAUUUGCCCCAGGCCGCAGGCGGCAGGCGGCACAGCCGCACCUAGCGGCCAUAAUUAACCAAAUAAAUAAAACAGUC--GAA---------------UUGGUGGGU
.....((((..(((((((((..((.(((......))))).))).)))))).......(((((.(..((......)).--.).---------------))))))))) ( -32.80)
>DroWil_CAF1 36203 87 - 1
UAUUUGCCU-------------------GUAACACGCGCGCUUUGCGCCCAUAAUUAACCAAAUAAAUAAAAUAUAUACUAGUACGUACCCAACAUACUAGUGUAU
((((((...-------------------.......((((.....))))...........))))))........(((((((((((.((.....)).))))))))))) ( -19.20)
>DroYak_CAF1 20630 94 - 1
UAUUUGCCCCG------AGGCCGCAGGCGGCACAGCCGCACCUAGCGGCCAUAAUUAACCAAAUAAAUAAAACAGUC--GAA----AACCGAACUGACUGCUGGGU
.....((((.(------.(((((((((((((...)))))..)).))))))......................(((((--(..----........))))))).)))) ( -32.30)
>consensus
UAUUUGCCCCA______AGGCCGCAGGCGGCACAGCCGCACCUAGCGGCCAUAAUUAACCAAAUAAAUAAAACAGUC__GAA____AACUGAACCGACUGGUGAGU
((((((.............((((....))))...(((((.....)))))..........)))))).......(((((..................)))))...... (-15.26 = -16.30 +   1.05)

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 10:46:11 2006