Locus 8678

Sequence ID 3R_DroMel_CAF1
Location 23,183,816 – 23,183,907
Length 91
Max. P 0.943715
window13938 window13939

overview

Window 8

Location 23,183,816 – 23,183,907
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 86.08
Mean single sequence MFE -20.68
Consensus MFE -14.34
Energy contribution -15.28
Covariance contribution 0.94
Combinations/Pair 1.13
Mean z-score -2.75
Structure conservation index 0.69
SVM decision value 1.34
SVM RNA-class probability 0.943715
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23183816 91 + 27905053
ACCAGGCUUGGCCAGCAGAAAAGCUGAAAAUGCUGAAAACGCUGGCCAAAGAUAACGGAAGCAGCAAAUAAAAAUCAUUCAUUGUAAACAU
.....(((((((((((.....(((.......)))......)))))))))......(....)..)).......................... ( -22.30)
>DroSec_CAF1 26605 91 + 1
ACAAGGCCUGGCCAGCAGGAAAGCUGAAAAUGCUGAAAAAGCUGGCCAAAGAUAACGGAAGCAGCAAAUAAAAAUCAUUCAUUGUAAACAU
.....((.((((((((.....(((.......)))......)))))))).......(....)..)).......................... ( -21.00)
>DroSim_CAF1 17362 91 + 1
ACAAGGCCUGGCCAGCAGGAAAGCUGAAAAUACUGAAAAAGCUGGCCAAAGAUAACGGAAGCAGCAAAUAAAAAUCAUUCAUUGUAAACAU
.....((.((((((((.....((.........))......)))))))).......(....)..)).......................... ( -16.20)
>DroAna_CAF1 29306 83 + 1
ACGAUUCCGGGCCAGUAGGGAGGCCAGC-------AAAAAGCUGGCCA-AGAUAACGGAAGCACCAAAUAAAAAUCAUUCAUUGUAAAUAU
..(.(((((..((....))..(((((((-------.....))))))).-......))))).)............................. ( -23.20)
>consensus
ACAAGGCCUGGCCAGCAGGAAAGCUGAAAAUGCUGAAAAAGCUGGCCAAAGAUAACGGAAGCAGCAAAUAAAAAUCAUUCAUUGUAAACAU
((((.....(((((((.....(((.......)))......)))))))........(....)....................))))...... (-14.34 = -15.28 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 23,183,816 – 23,183,907
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 86.08
Mean single sequence MFE -20.98
Consensus MFE -14.62
Energy contribution -15.88
Covariance contribution 1.25
Combinations/Pair 1.10
Mean z-score -2.22
Structure conservation index 0.70
SVM decision value 0.84
SVM RNA-class probability 0.862968
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23183816 91 - 27905053
AUGUUUACAAUGAAUGAUUUUUAUUUGCUGCUUCCGUUAUCUUUGGCCAGCGUUUUCAGCAUUUUCAGCUUUUCUGCUGGCCAAGCCUGGU
..((....((((((.....))))))....))..(((.....(((((((((((.....(((.......)))....)))))))))))..))). ( -21.10)
>DroSec_CAF1 26605 91 - 1
AUGUUUACAAUGAAUGAUUUUUAUUUGCUGCUUCCGUUAUCUUUGGCCAGCUUUUUCAGCAUUUUCAGCUUUCCUGCUGGCCAGGCCUUGU
..((....((((((.....))))))....))..........((((((((((......(((.......))).....))))))))))...... ( -20.30)
>DroSim_CAF1 17362 91 - 1
AUGUUUACAAUGAAUGAUUUUUAUUUGCUGCUUCCGUUAUCUUUGGCCAGCUUUUUCAGUAUUUUCAGCUUUCCUGCUGGCCAGGCCUUGU
..((....((((((.....))))))....))..........((((((((((......(((.......))).....))))))))))...... ( -18.40)
>DroAna_CAF1 29306 83 - 1
AUAUUUACAAUGAAUGAUUUUUAUUUGGUGCUUCCGUUAUCU-UGGCCAGCUUUUU-------GCUGGCCUCCCUACUGGCCCGGAAUCGU
.............(((((((.....(((.(((...((.....-.(((((((.....-------))))))).....)).))))))))))))) ( -24.10)
>consensus
AUGUUUACAAUGAAUGAUUUUUAUUUGCUGCUUCCGUUAUCUUUGGCCAGCUUUUUCAGCAUUUUCAGCUUUCCUGCUGGCCAGGCCUUGU
.......((..((((((...))))))..))...........((((((((((......(((.......))).....))))))))))...... (-14.62 = -15.88 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:04 2006