Locus 479

Sequence ID X_DroMel_CAF1
Location 1,401,228 – 1,401,346
Length 118
Max. P 0.999731
window739 window740

overview

Window 9

Location 1,401,228 – 1,401,346
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.87
Mean single sequence MFE -29.10
Consensus MFE -27.30
Energy contribution -27.97
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.61
Structure conservation index 0.94
SVM decision value 3.96
SVM RNA-class probability 0.999731
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1401228 118 + 22224390
ACGCAU--ACAAAAUUUCAAAAUCAUCAAAAAGUAGAAAAAUACGCGUUUCAUGCACAUUCGCGGCAUUUAUGAGCCCAUCAACGUCGCUCAUGGAUGAAAGUAACGCGUUUUAUGCGUC
((((((--(.....((((.................))))...(((((((.(.(((......))).(((((((((((...........)))))))))))...).)))))))..))))))). ( -30.63)
>DroPse_CAF1 35360 118 + 1
ACGCAU--ACAAAAUUUCAAAAUCAUCAAAAAGUAGAAAAAUACGCGUUUCAUGCACAUUCGCGGCAUUUAUGAGCCCAUCAACGUCGCUCAUGGAUGAAAGUAACGCGUUUUAUACGUC
......--........................(((.......(((((((.(.(((......))).(((((((((((...........)))))))))))...).)))))))....)))... ( -25.60)
>DroSec_CAF1 6617 120 + 1
ACGCACUAUCAAAAUUUCAAAAUCAUCAAAAAGUAGAAAAAUACGCGUUUCAUGCGCAUUCGCGGCAUUUAUGAGCCCAUCAACGUCGCUCAUGGAUGAAAGUAACGCGUUUUAUGCGUC
(((((.........((((.................))))((.(((((((.(...(((....))).(((((((((((...........)))))))))))...).))))))).)).))))). ( -30.13)
>DroEre_CAF1 3160 118 + 1
ACGCAU--ACAAAAUUUCAAAAUCAUCAAAAAGUAGAAAAAUACGCGUUUCAUGCACAUUCGCGGCAUUUAUGAGCCCAUCAACGUCGCUCAUGGAUGAAAGUAACGCGUUUUAUGCGUC
((((((--(.....((((.................))))...(((((((.(.(((......))).(((((((((((...........)))))))))))...).)))))))..))))))). ( -30.63)
>DroWil_CAF1 57942 118 + 1
ACGCAU--ACAAAAUUUCAAAAUCAUCAAAAAGUAGAAAAAUACGCGUUUCAUGCACAUUCGCGUCAUUUAUGAGCCCAUCAACGUCGCUCAUGGAUGAAAGUAACGCGUUUUAUGCGUC
((((((--(.....((((.................))))...(((((((.(.(((......)))((((((((((((...........))))))))))))..).)))))))..))))))). ( -32.03)
>DroPer_CAF1 37670 118 + 1
ACGCAU--ACAAAAUUUCAAAAUCAUCAAAAAGUAGAAAAAUACGCGUUUCAUGCACAUUCGCGGCAUUUAUGAGCCCAUCAACGUCGCUCAUGGAUGAAAGUAACGCGUUUUAUACGUC
......--........................(((.......(((((((.(.(((......))).(((((((((((...........)))))))))))...).)))))))....)))... ( -25.60)
>consensus
ACGCAU__ACAAAAUUUCAAAAUCAUCAAAAAGUAGAAAAAUACGCGUUUCAUGCACAUUCGCGGCAUUUAUGAGCCCAUCAACGUCGCUCAUGGAUGAAAGUAACGCGUUUUAUGCGUC
((((((..((......................(((......)))(((((.(.(((......))).(((((((((((...........)))))))))))...).)))))))...)))))). (-27.30 = -27.97 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,401,228 – 1,401,346
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.87
Mean single sequence MFE -30.53
Consensus MFE -29.43
Energy contribution -29.07
Covariance contribution -0.36
Combinations/Pair 1.06
Mean z-score -1.28
Structure conservation index 0.96
SVM decision value 1.65
SVM RNA-class probability 0.969779
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1401228 118 - 22224390
GACGCAUAAAACGCGUUACUUUCAUCCAUGAGCGACGUUGAUGGGCUCAUAAAUGCCGCGAAUGUGCAUGAAACGCGUAUUUUUCUACUUUUUGAUGAUUUUGAAAUUUUGU--AUGCGU
.(((((((..(((((((....((((((((..(((.((((.(((....))).)))).)))..))).).)))))))))))...........(((..(.....)..))).....)--)))))) ( -31.30)
>DroPse_CAF1 35360 118 - 1
GACGUAUAAAACGCGUUACUUUCAUCCAUGAGCGACGUUGAUGGGCUCAUAAAUGCCGCGAAUGUGCAUGAAACGCGUAUUUUUCUACUUUUUGAUGAUUUUGAAAUUUUGU--AUGCGU
.(((((((..(((((((....((((((((..(((.((((.(((....))).)))).)))..))).).)))))))))))...........(((..(.....)..))).....)--)))))) ( -29.30)
>DroSec_CAF1 6617 120 - 1
GACGCAUAAAACGCGUUACUUUCAUCCAUGAGCGACGUUGAUGGGCUCAUAAAUGCCGCGAAUGCGCAUGAAACGCGUAUUUUUCUACUUUUUGAUGAUUUUGAAAUUUUGAUAGUGCGU
.((((((...(((((((....((((((((..(((.((((.(((....))).)))).)))..))).).))))))))))).....((....(((..(.....)..)))....))..)))))) ( -31.10)
>DroEre_CAF1 3160 118 - 1
GACGCAUAAAACGCGUUACUUUCAUCCAUGAGCGACGUUGAUGGGCUCAUAAAUGCCGCGAAUGUGCAUGAAACGCGUAUUUUUCUACUUUUUGAUGAUUUUGAAAUUUUGU--AUGCGU
.(((((((..(((((((....((((((((..(((.((((.(((....))).)))).)))..))).).)))))))))))...........(((..(.....)..))).....)--)))))) ( -31.30)
>DroWil_CAF1 57942 118 - 1
GACGCAUAAAACGCGUUACUUUCAUCCAUGAGCGACGUUGAUGGGCUCAUAAAUGACGCGAAUGUGCAUGAAACGCGUAUUUUUCUACUUUUUGAUGAUUUUGAAAUUUUGU--AUGCGU
.(((((((..(((((((....((((((((..(((.((((.(((....))).)))).)))..))).).)))))))))))...........(((..(.....)..))).....)--)))))) ( -30.90)
>DroPer_CAF1 37670 118 - 1
GACGUAUAAAACGCGUUACUUUCAUCCAUGAGCGACGUUGAUGGGCUCAUAAAUGCCGCGAAUGUGCAUGAAACGCGUAUUUUUCUACUUUUUGAUGAUUUUGAAAUUUUGU--AUGCGU
.(((((((..(((((((....((((((((..(((.((((.(((....))).)))).)))..))).).)))))))))))...........(((..(.....)..))).....)--)))))) ( -29.30)
>consensus
GACGCAUAAAACGCGUUACUUUCAUCCAUGAGCGACGUUGAUGGGCUCAUAAAUGCCGCGAAUGUGCAUGAAACGCGUAUUUUUCUACUUUUUGAUGAUUUUGAAAUUUUGU__AUGCGU
.((((((...(((((((....((((((((..(((.((((.(((....))).)))).)))..))).).)))))))))))...........(((..(.....)..)))........)))))) (-29.43 = -29.07 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:36 2006