Locus 1196

Sequence ID X_DroMel_CAF1
Location 3,567,901 – 3,568,040
Length 139
Max. P 0.714523
window1920 window1921

overview

Window 0

Location 3,567,901 – 3,568,000
Length 99
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 84.09
Mean single sequence MFE -19.99
Consensus MFE -14.65
Energy contribution -14.77
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -2.01
Structure conservation index 0.73
SVM decision value 0.38
SVM RNA-class probability 0.714523
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3567901 99 - 22224390
GGGUGGUGAA---CAAGGGUUGGGUGGCUACCAUACCACAUCUUCCCCCAACAAACUCCACACCCCCCCCCC--CCCCCAACGCCCAUCACAGAAACACACACA
(((.((((..---..((.((((((.((.................))))))))...))...))))))).....--.............................. ( -20.73)
>DroSec_CAF1 24150 100 - 1
-GGUGGUGAACAACAAGGGUUGGGUGGCUACCAUACCACAUCUUCCCCCACCAAACAACACAACCCCAUCAUAGGAUCCAACAC---UCACAGAAACUCACACA
-.((((((........(((((((((((....................)))))........)))))).(((....)))....)))---.)))............. ( -18.45)
>DroSim_CAF1 21530 100 - 1
-GGUGGUGAACAACAAGGGUGGGGUGGCUACCAUACCACAUCUUCCCUCACCAAACAACACAACCCCUCCAUAGGAUCCAACAC---UCACAGAAACUCACACA
-((((((((.....((((((((..(((...)))..)))).))))...))))))............(((....)))..)).....---................. ( -20.80)
>consensus
_GGUGGUGAACAACAAGGGUUGGGUGGCUACCAUACCACAUCUUCCCCCACCAAACAACACAACCCCACCAUAGGAUCCAACAC___UCACAGAAACUCACACA
.(((((((.....)).(((..((((((........)))).))..)))))))).................................................... (-14.65 = -14.77 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 3,567,929 – 3,568,040
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.74
Mean single sequence MFE -35.48
Consensus MFE -17.66
Energy contribution -20.18
Covariance contribution 2.52
Combinations/Pair 1.12
Mean z-score -1.80
Structure conservation index 0.50
SVM decision value 0.29
SVM RNA-class probability 0.672291
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3567929 111 - 22224390
AUAGAAGAGCAGCUCAGAAGUGGGUGUAAUAAAGGGGUGGGGGUGGUGAA---CAAGGGUUGGGUGG----CUACCAUACCACAUCUUCCCCCAACAAACUCCACACCCCCCCCCC--CC
........(((.((((....)))))))......((((.(((((.((((..---..((.((((((.((----.................))))))))...))...))))))))))))--). ( -40.73)
>DroSec_CAF1 24175 115 - 1
AUAGAAGAGCAGCUCAGAAGUGGGUGUAAUAUAGGGGUGG-GGUGGUGAACAACAAGGGUUGGGUGG----CUACCAUACCACAUCUUCCCCCACCAAACAACACAACCCCAUCAUAGGA
......(((...))).((.(.((((..........(((((-((.((((..((((....))))((((.----......)))).))))...)))))))..........))))).))...... ( -33.95)
>DroSim_CAF1 21555 115 - 1
AUAGAAGAGCAGCUCAGAAGUGGGUGUAAUAUAGGGGUGG-GGUGGUGAACAACAAGGGUGGGGUGG----CUACCAUACCACAUCUUCCCUCACCAAACAACACAACCCCUCCAUAGGA
........(((.((((....))))))).....((((((.(-..((((((.....((((((((..(((----...)))..)))).))))...))))))..)......))))))........ ( -33.70)
>DroEre_CAF1 23948 93 - 1
AUUGAAAAGGAGCUCAGAAGUGGGUGGAAUAUGGGGGUGG-GGUGUUGAACAACAAGGGUUGGGUAG----CUACCAU---------UCCCCCAUC-------------CCCCCUUACAU
.((((........))))(((.(((.(((...((((((...-(((((((..((((....))))..)))----).)))..---------.))))))))-------------))))))).... ( -36.40)
>DroYak_CAF1 25521 101 - 1
AUUGAAGAGCAGCUCAGAAGUGGGCGGAAUAUAGGGGUGU-GGUGUUGAACAACAAGGGUUGGGUGGUUGGGUACCAU---------UCCCCCAUCUCU---------CCCCACUUACAU
......(((...)))..(((((((.(((.....((((.((-((((((.(((.((.........)).))).))))))))---------.))))....)))---------.))))))).... ( -32.60)
>consensus
AUAGAAGAGCAGCUCAGAAGUGGGUGUAAUAUAGGGGUGG_GGUGGUGAACAACAAGGGUUGGGUGG____CUACCAUACCACAUCUUCCCCCACCAAAC__CACA_CCCCCCCAUACAA
...........(((((....)))))........((((.....((((((..((((....))))(((((....))))).)))))).....))))............................ (-17.66 = -20.18 +   2.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:38 2006