Locus 2355

Sequence ID X_DroMel_CAF1
Location 6,286,139 – 6,286,291
Length 152
Max. P 0.973328
window3833 window3834

overview

Window 3

Location 6,286,139 – 6,286,251
Length 112
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 95.83
Mean single sequence MFE -42.57
Consensus MFE -40.71
Energy contribution -41.27
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.63
Structure conservation index 0.96
SVM decision value 1.71
SVM RNA-class probability 0.973328
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6286139 112 - 22224390
AGACGCAGUUCGGCAACGCCAUUGUUACCUGUACAGGUGGACGUGUGUGCGCGCGGACAGAGAUGGCGAUGGUGAAUGCGAUAUUUCAGUGCGUUGUGUGAAAAGCAGCGUA
...((((.((((.((.(((((((...((((....))))(..(((((....)))))..)...))))))).)).)))))))).........((((((((.......)))))))) ( -43.50)
>DroSec_CAF1 22905 112 - 1
AGACGCAGUUCGGCAACGCCAUUGUUACCUGUACAGGUGAACGUGUGUGCGCGCGGACAGAGAUGGCGAUGGCGAAUGCGAUAUUUCAGUGCGUUGUGUGAAAAGCAGCGUA
...((((.((((.((.(((((((.((((((....)))))).(((((....)))))......))))))).)).)))))))).........((((((((.......)))))))) ( -45.50)
>DroYak_CAF1 20021 112 - 1
AGACGCAGUUCGGCAACGCCAUUGUUACCCGUACAGGUGGACGUGUGUGUGCGCGGACAGAGAUGGCGAAUGCGAAUGCGAUAUUUCAAUGCGUUGUGUGAAAAGCAGCGUA
...((((.((((.((.(((((((.....((.....))((..(((((....)))))..))..)))))))..)))))))))).........((((((((.......)))))))) ( -38.70)
>consensus
AGACGCAGUUCGGCAACGCCAUUGUUACCUGUACAGGUGGACGUGUGUGCGCGCGGACAGAGAUGGCGAUGGCGAAUGCGAUAUUUCAGUGCGUUGUGUGAAAAGCAGCGUA
...((((.((((.((.(((((((.((((((....)))))).(((((....)))))......))))))).)).)))))))).........((((((((.......)))))))) (-40.71 = -41.27 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 6,286,179 – 6,286,291
Length 112
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 95.24
Mean single sequence MFE -38.47
Consensus MFE -37.29
Energy contribution -37.40
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.17
Structure conservation index 0.97
SVM decision value 1.27
SVM RNA-class probability 0.938323
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6286179 112 - 22224390
UCGCGUCGGACGCAAGGAAACAAUAACAAGCGGAAAAAACAGACGCAGUUCGGCAACGCCAUUGUUACCUGUACAGGUGGACGUGUGUGCGCGCGGACAGAGAUGGCGAUGG
....(((((((....(....)........(((...........))).)))))))..(((((((...((((....))))(..(((((....)))))..)...))))))).... ( -39.30)
>DroSec_CAF1 22945 112 - 1
UCGCGUCGGACGCAAGGAAACAAUAACAAGCGGAAAAAACAGACGCAGUUCGGCAACGCCAUUGUUACCUGUACAGGUGAACGUGUGUGCGCGCGGACAGAGAUGGCGAUGG
....(((((((....(....)........(((...........))).)))))))..(((((((.((((((....)))))).(((((....)))))......))))))).... ( -39.20)
>DroYak_CAF1 20061 112 - 1
UUUCGUCGGACACAAGGAAACAAUAACAAGCGGAAAAAACAGACGCAGUUCGGCAACGCCAUUGUUACCCGUACAGGUGGACGUGUGUGUGCGCGGACAGAGAUGGCGAAUG
....(((((((....(....)........(((...........))).)))))))..(((((((.....((.....))((..(((((....)))))..))..))))))).... ( -36.90)
>consensus
UCGCGUCGGACGCAAGGAAACAAUAACAAGCGGAAAAAACAGACGCAGUUCGGCAACGCCAUUGUUACCUGUACAGGUGGACGUGUGUGCGCGCGGACAGAGAUGGCGAUGG
....(((((((....(....)........(((...........))).)))))))..(((((((.((((((....)))))).(((((....)))))......))))))).... (-37.29 = -37.40 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:34 2006