Locus 828

Sequence ID X_DroMel_CAF1
Location 2,312,622 – 2,312,721
Length 99
Max. P 0.999494
window1340 window1341

overview

Window 0

Location 2,312,622 – 2,312,721
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 94.75
Mean single sequence MFE -35.24
Consensus MFE -32.16
Energy contribution -31.80
Covariance contribution -0.36
Combinations/Pair 1.12
Mean z-score -2.33
Structure conservation index 0.91
SVM decision value 3.65
SVM RNA-class probability 0.999494
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2312622 99 + 22224390
AAGCUGCACGCCCACCAACUAAAGUUUCGAGGAUCGAGAGAAAAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGUUC
.....((.((((((((((..........(.....)((((((.....(((((((((.......)))))))))))))))...))).)))))))..)).... ( -32.10)
>DroSec_CAF1 10611 99 + 1
AAGCUGCACGCCCACCAACUAAAGUUUCGAGGAUCGAGGGAGAAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.((((((((((........(((.....)))((((((...(((((((((.......)))))))))))))))...))).)))))))..))))). ( -39.40)
>DroSim_CAF1 11386 99 + 1
AUGCUGCACGCCCACCAACUAAAGUUUCGAGGAUCGAGGGAACAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.((((((((((..........(.....)((((((.....(((((((((.......)))))))))))))))...))).)))))))..))))). ( -35.30)
>DroEre_CAF1 11951 99 + 1
AAGCUGCACGCCCACUAACUAAAGUUUCGAGGACCUGGAGAAAAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.(((((((........(((.....))).((((((....((((((((((.......)))))))))).)))))).....)))))))..))))). ( -34.30)
>DroYak_CAF1 11640 99 + 1
AAGCUGCACGCCCACUAACUAAAGUUUCGAGGACCGGGGCAAAAUGGGGAUGCGAUUAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.(((((((........((..((.....))..)).....((((((((((.......))))))))))............)))))))..))))). ( -35.10)
>consensus
AAGCUGCACGCCCACCAACUAAAGUUUCGAGGAUCGAGGGAAAAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.((((((((((.....(((.....))).((((((.....(((((((((.......)))))))))))))))...))).)))))))..))))). (-32.16 = -31.80 +  -0.36) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 2,312,622 – 2,312,721
Length 99
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 94.75
Mean single sequence MFE -29.23
Consensus MFE -24.75
Energy contribution -25.31
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -1.43
Structure conservation index 0.85
SVM decision value 0.42
SVM RNA-class probability 0.728339
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2312622 99 - 22224390
GAACGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUUUUCUCUCGAUCCUCGAAACUUUAGUUGGUGGGCGUGCAGCUU
....(((.(((((((.(((((((((((((((........................)))))))(((.....)))...))))))))))))))))))..... ( -31.36)
>DroSec_CAF1 10611 99 - 1
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUUCUCCCUCGAUCCUCGAAACUUUAGUUGGUGGGCGUGCAGCUU
....(((.(((((((.(((((((((...(((((.......(((....)))....)))))...(((.....)))..)))))))))))))))))))..... ( -30.50)
>DroSim_CAF1 11386 99 - 1
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUGUUCCCUCGAUCCUCGAAACUUUAGUUGGUGGGCGUGCAGCAU
....((.((((((((.(((((((((............((((((..........))))))...(((.....)))..)))))))))))))))))...)).. ( -32.20)
>DroEre_CAF1 11951 99 - 1
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUUUUCUCCAGGUCCUCGAAACUUUAGUUAGUGGGCGUGCAGCUU
....(((.(((((((..((((((((.((.((.........(((..........)))..........)).))....)))))))).))))))))))..... ( -25.41)
>DroYak_CAF1 11640 99 - 1
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUAAUCGCAUCCCCAUUUUGCCCCGGUCCUCGAAACUUUAGUUAGUGGGCGUGCAGCUU
....(((.(((((((..((((((((.....................(((.........)))..((.....))...)))))))).))))))))))..... ( -26.70)
>consensus
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUUUUCCCUCGAUCCUCGAAACUUUAGUUGGUGGGCGUGCAGCUU
....(((.(((((((.(((((((((....(((((.....)))(((((................))))).))....)))))))))))))))))))..... (-24.75 = -25.31 +   0.56) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:48 2006