Locus 710

Sequence ID X_DroMel_CAF1
Location 1,950,797 – 1,950,925
Length 128
Max. P 0.975773
window1138 window1139

overview

Window 8

Location 1,950,797 – 1,950,893
Length 96
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 79.80
Mean single sequence MFE -47.37
Consensus MFE -31.16
Energy contribution -32.50
Covariance contribution 1.34
Combinations/Pair 1.08
Mean z-score -2.53
Structure conservation index 0.66
SVM decision value 1.76
SVM RNA-class probability 0.975773
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1950797 96 + 22224390
UUGGUCGC-GGGGGGGCGCCAGGGUGGAUGCAGCGGAUCCGUUGCCUCU------GCACUGCUUCAUCCUCAGCCUCAGCCUGUUGCCCACCGCGGAAGCAGU
....((((-((..(((((.(((((..((.((((((....)))))).)).------.)...(((........))).....)))).))))).))))))....... ( -44.30)
>DroSec_CAF1 13269 96 + 1
UUGGGCGC-GGGGGGGCGUCAGGGUGAAUGCAGCGGAUCUGUUGCCGCU------GCACUGCUUCAUCCUCAGCCUCAGCCUGUUGCCCACCGCGGAAGCAGU
.(((((((-((((((((...((((((((((((((((........)))))------)))....))))))))..)))))..)))).))))))..((....))... ( -53.40)
>DroEre_CAF1 14478 91 + 1
UGGGGCGAAGGGGGGGCGCAAGGGUGGAUGCAGCGGAGCCGUUGCCAUUACCGUUGCACUGCUU------C------AGCCUGUUGCCCACCGCGUAAGCAGU
..(((((((((.(((((((((.(((((..((((((....))))))..))))).))))...))))------)------..))).))))))...((....))... ( -44.40)
>consensus
UUGGGCGC_GGGGGGGCGCCAGGGUGGAUGCAGCGGAUCCGUUGCCACU______GCACUGCUUCAUCCUCAGCCUCAGCCUGUUGCCCACCGCGGAAGCAGU
.........((..(((((.((((.(((..((((((....))))))..........((...)).............))).)))).))))).))((....))... (-31.16 = -32.50 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 1,950,835 – 1,950,925
Length 90
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 80.21
Mean single sequence MFE -27.50
Consensus MFE -20.27
Energy contribution -21.27
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.74
SVM decision value 0.16
SVM RNA-class probability 0.612599
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1950835 90 + 22224390
CGUUGCCUCU------GCACUGCUUCAUCCUCAGCCUCAGCCUGUUGCCCACCGCGGAAGCAGUGCGGUAACCAGUGACAAUUG-ACCGA--AAACGAU
.((((((...------((((((((((.....((((....).))).(((.....)))))))))))))))))))((((....))))-.....--....... ( -27.40)
>DroSec_CAF1 13307 90 + 1
UGUUGCCGCU------GCACUGCUUCAUCCUCAGCCUCAGCCUGUUGCCCACCGCGGAAGCAGUGCGGUAACCAGUGACAAUUG-ACCGA--AAACGAU
(((..(.(((------((((((((((.....((((....).))).(((.....)))))))))))))))).....)..)))....-.....--....... ( -28.10)
>DroEre_CAF1 14517 87 + 1
CGUUGCCAUUACCGUUGCACUGCUU------C------AGCCUGUUGCCCACCGCGUAAGCAGUGCGGUAACCAGUGACAAUUGCACCAGCAAAAAGAU
.((..(..(((((...(((((((((------.------.((..((.....)).))..))))))))))))))...)..))..((((....))))...... ( -27.00)
>consensus
CGUUGCCACU______GCACUGCUUCAUCCUCAGCCUCAGCCUGUUGCCCACCGCGGAAGCAGUGCGGUAACCAGUGACAAUUG_ACCGA__AAACGAU
.((((((.........((((((((((.....(((.......))).(((.....)))))))))))))))))))((((....))))............... (-20.27 = -21.27 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:44 2006