Locus 659

Sequence ID X_DroMel_CAF1
Location 1,848,377 – 1,848,467
Length 90
Max. P 0.960336
window1059 window1060

overview

Window 9

Location 1,848,377 – 1,848,467
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 94.83
Mean single sequence MFE -31.88
Consensus MFE -27.40
Energy contribution -27.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.10
Structure conservation index 0.86
SVM decision value 1.51
SVM RNA-class probability 0.960336
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1848377 90 + 22224390
GACGCCGGCAGCGGCAUAGGCAGAGGCAGCAGCAGCGUUUCGUGGCUGCUGCUUUCUUUCGCUCGCUUACUCCUUUCAUUUCACUUUAUU
...((((....))))...((((((((.(((((((((........))))))))).))))).)))........................... ( -31.10)
>DroSec_CAF1 49963 84 + 1
GACGCCGGCAGCGG------CAGAGGCAGCAGCAGCGUUUCGUGGCUGCUGCUUUCUUUCGCUCGCUUACUCCUUUCAUUUCACUUUAUU
......((((((((------.((((((((((((.(((...))).)))))))).)))).))))).)))....................... ( -31.50)
>DroEre_CAF1 51245 84 + 1
GGCGCCGGCAGCGG------CAGAGGCAGCAGCAGCGUUUCGUGGCUGCUGCUUUCUUUCGCUCGCUUACUCCUUUCAUUUCACUUUAUU
((.(..((((((((------.((((((((((((.(((...))).)))))))).)))).))))).)))..).))................. ( -34.20)
>DroYak_CAF1 41078 84 + 1
GACGCCGGCAGCGG------CAGAGGCAGCAGCAGCAUUUCGUGGCUGCUGCUUUCUUUCGCUCGCUUAAUCCUUUCAUUUCACUUUAUU
......((((((((------.((((((((((((.((.....)).)))))))).)))).))))).)))....................... ( -30.70)
>consensus
GACGCCGGCAGCGG______CAGAGGCAGCAGCAGCGUUUCGUGGCUGCUGCUUUCUUUCGCUCGCUUACUCCUUUCAUUUCACUUUAUU
......((((((((........(((((((((((.((.....)).)))))))))))...))))).)))....................... (-27.40 = -27.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,848,377 – 1,848,467
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 94.83
Mean single sequence MFE -30.20
Consensus MFE -25.48
Energy contribution -25.48
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.83
Structure conservation index 0.84
SVM decision value 1.25
SVM RNA-class probability 0.936376
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1848377 90 - 22224390
AAUAAAGUGAAAUGAAAGGAGUAAGCGAGCGAAAGAAAGCAGCAGCCACGAAACGCUGCUGCUGCCUCUGCCUAUGCCGCUGCCGGCGUC
...........(((...((....((((.(((..(((.(((((((((........)))))))))...))).....))))))).))..))). ( -29.80)
>DroSec_CAF1 49963 84 - 1
AAUAAAGUGAAAUGAAAGGAGUAAGCGAGCGAAAGAAAGCAGCAGCCACGAAACGCUGCUGCUGCCUCUG------CCGCUGCCGGCGUC
....................((..((.((((..(((.(((((((((........)))))))))...))).------.))))))..))... ( -29.80)
>DroEre_CAF1 51245 84 - 1
AAUAAAGUGAAAUGAAAGGAGUAAGCGAGCGAAAGAAAGCAGCAGCCACGAAACGCUGCUGCUGCCUCUG------CCGCUGCCGGCGCC
.................((.((..((.((((..(((.(((((((((........)))))))))...))).------.))))))..)).)) ( -31.50)
>DroYak_CAF1 41078 84 - 1
AAUAAAGUGAAAUGAAAGGAUUAAGCGAGCGAAAGAAAGCAGCAGCCACGAAAUGCUGCUGCUGCCUCUG------CCGCUGCCGGCGUC
...........(((...((....((((.(((..((..(((((((((........)))))))))..)).))------))))).))..))). ( -29.70)
>consensus
AAUAAAGUGAAAUGAAAGGAGUAAGCGAGCGAAAGAAAGCAGCAGCCACGAAACGCUGCUGCUGCCUCUG______CCGCUGCCGGCGUC
.................((....((((..(....)..(((((((((........)))))))))..............)))).))...... (-25.48 = -25.48 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:28 2006