Locus 3553

Sequence ID 2L_DroMel_CAF1
Location 10,354,425 – 10,354,543
Length 118
Max. P 0.751985
window5615 window5616

overview

Window 5

Location 10,354,425 – 10,354,543
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.49
Mean single sequence MFE -36.79
Consensus MFE -23.06
Energy contribution -24.88
Covariance contribution 1.81
Combinations/Pair 1.12
Mean z-score -1.91
Structure conservation index 0.63
SVM decision value 0.30
SVM RNA-class probability 0.677348
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10354425 118 + 22407834
CUGUUUUAUCGAUUUGUGGGCGGGCUCAGUGCCAUAAAAC--AAGGAUCUGAGUUGGCGCUUUGCCACGCCCCCCAUAUUCAUUACUUCAACUUUGUGCUAAUGACACUGGGCUACAAAG
............(((((((((((((..(((((((......--............)))))))..))).)))))((((...((((((...((....))...))))))...))))..))))). ( -38.07)
>DroSim_CAF1 7125 118 + 1
CUGUUUUAUCGAUUUGUGGGCGGGCUCAGUGCCAUAAAAC--AUGGAUCUGAGUUGGCGCUUUGCCACGCCCCCCAUAUUCAUUACUUCAACUUUGUGCUAAUGACACUGGGCUACAAAG
............(((((((((((((..(((((((......--............)))))))..))).)))))((((...((((((...((....))...))))))...))))..))))). ( -38.07)
>DroYak_CAF1 7152 118 + 1
CUGUUUUAUCGAUUUGGGGGCGGGCUCAAUGCCAUAAAAC--UGGGAUCUGAGUUGGCGCUCUGCCACGCCCCCAAUAUUCAUUACUUCAACUUUGUGCUAAUGACACUGGGCUGCAAAG
..........((.(((((((((((((((((.(((......--))).)).))))))(((.....))).)))))))))...))..........(((((((((..........))).)))))) ( -40.70)
>DroAna_CAF1 6818 119 + 1
CCCUUUUAUUGAUUCG-GGGCGGGCACCAUGGCUUAAAAUAAAAGGGUCGGGCUUGGACCAUUGCCACGCCCUUAAAGUUCAUUAAGUUCAAAUUGUGUUAAUGACACUGUGCACCAAAU
(((............)-))..((((((..(((((((((((..(((((.(((((..........))).)))))))...)))..))))).)))....(((((...))))).)))).)).... ( -30.30)
>consensus
CUGUUUUAUCGAUUUGUGGGCGGGCUCAAUGCCAUAAAAC__AAGGAUCUGAGUUGGCGCUUUGCCACGCCCCCAAUAUUCAUUACUUCAACUUUGUGCUAAUGACACUGGGCUACAAAG
.................((((((((..(((((((....................)))))))..))).)))))...................(((((((((..........))).)))))) (-23.06 = -24.88 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 10,354,425 – 10,354,543
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 82.49
Mean single sequence MFE -35.88
Consensus MFE -24.08
Energy contribution -24.77
Covariance contribution 0.69
Combinations/Pair 1.11
Mean z-score -1.87
Structure conservation index 0.67
SVM decision value 0.48
SVM RNA-class probability 0.751985
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10354425 118 - 22407834
CUUUGUAGCCCAGUGUCAUUAGCACAAAGUUGAAGUAAUGAAUAUGGGGGGCGUGGCAAAGCGCCAACUCAGAUCCUU--GUUUUAUGGCACUGAGCCCGCCCACAAAUCGAUAAAACAG
.(((((..((((...((((((.((......))...))))))...))))(((((.(((..((.((((...(((....))--).....)))).))..)))))))))))))............ ( -38.50)
>DroSim_CAF1 7125 118 - 1
CUUUGUAGCCCAGUGUCAUUAGCACAAAGUUGAAGUAAUGAAUAUGGGGGGCGUGGCAAAGCGCCAACUCAGAUCCAU--GUUUUAUGGCACUGAGCCCGCCCACAAAUCGAUAAAACAG
.(((((..((((...((((((.((......))...))))))...))))(((((.(((..((.((((...((......)--).....)))).))..)))))))))))))............ ( -38.70)
>DroYak_CAF1 7152 118 - 1
CUUUGCAGCCCAGUGUCAUUAGCACAAAGUUGAAGUAAUGAAUAUUGGGGGCGUGGCAGAGCGCCAACUCAGAUCCCA--GUUUUAUGGCAUUGAGCCCGCCCCCAAAUCGAUAAAACAG
.....((((...((((.....))))...))))............(((((((((.(((.(((......))).(((.(((--......))).)))..))))))))))))............. ( -37.00)
>DroAna_CAF1 6818 119 - 1
AUUUGGUGCACAGUGUCAUUAACACAAUUUGAACUUAAUGAACUUUAAGGGCGUGGCAAUGGUCCAAGCCCGACCCUUUUAUUUUAAGCCAUGGUGCCCGCCC-CGAAUCAAUAAAAGGG
....((.((((.((((.....))))........(((((........(((((((.(((..........))))).))))).....))))).....))))))..((-(............))) ( -29.32)
>consensus
CUUUGUAGCCCAGUGUCAUUAGCACAAAGUUGAAGUAAUGAAUAUGGGGGGCGUGGCAAAGCGCCAACUCAGAUCCUU__GUUUUAUGGCACUGAGCCCGCCCACAAAUCGAUAAAACAG
.((((...((((...((((((..............))))))...))))(((((.(((..((.(((......................))).))..)))))))).))))............ (-24.08 = -24.77 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:23 2006