Locus 7338

Sequence ID X_DroMel_CAF1
Location 18,315,711 – 18,315,841
Length 130
Max. P 0.999867
window12023 window12024

overview

Window 3

Location 18,315,711 – 18,315,807
Length 96
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.98
Mean single sequence MFE -41.77
Consensus MFE -33.04
Energy contribution -33.93
Covariance contribution 0.89
Combinations/Pair 1.06
Mean z-score -2.28
Structure conservation index 0.79
SVM decision value 2.45
SVM RNA-class probability 0.994041
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18315711 96 + 22224390
UCGAAGGAGCUAUGCCCCAAGCUCCAACGCUUUGGAUGGGCAAC------------------------UUCAUGGGUUCGUGUGUGGGCAACUUCAUUGACUCGUGAGUGGGCAUCUUCA
..((((..(((.(((((.....(((((....))))).)))))((------------------------(.((((((((.(((...((....)).))).))))))))))).)))..)))). ( -37.30)
>DroSec_CAF1 31549 120 + 1
UCGGAGGAGCUAUGCCCCAAGCUCCAACGCUUUGGAUAGGCAACUUCAUGGGUUCGGGUGUGGGCAACUUCAUGGGUUCGUGUGUCGGCAACUUCAUGGACUCGUGAGUGGGCAUCUUCA
...((((((((.(((((...((((.(((.(....((.((....))))..).))).))))..)))))(((.((((((((((((....(....)..))))))))))))))).))).))))). ( -48.10)
>DroEre_CAF1 23922 96 + 1
GCGGAGGAGCUAUGCCCCAAGCUCCAACGCUCUGGAUGGGCAUC------------------------UUUAUGGGCUCGUGAGUGGGCCUAUUCAUGGACUCGUGAGUGGGCAUCUUCA
(((..((((((........))))))..))).....((((((.((------------------------.....))))))))(((...(((((((((((....)))))))))))...))). ( -39.90)
>consensus
UCGGAGGAGCUAUGCCCCAAGCUCCAACGCUUUGGAUGGGCAAC________________________UUCAUGGGUUCGUGUGUGGGCAACUUCAUGGACUCGUGAGUGGGCAUCUUCA
..((((..(((.((((((((((......))).)))...))))..........................((((((((((((((...((....)).))))))))))))))..)))..)))). (-33.04 = -33.93 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,315,751 – 18,315,841
Length 90
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 73.33
Mean single sequence MFE -40.50
Consensus MFE -24.85
Energy contribution -24.63
Covariance contribution -0.22
Combinations/Pair 1.11
Mean z-score -2.87
Structure conservation index 0.61
SVM decision value 4.31
SVM RNA-class probability 0.999867
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18315751 90 + 22224390
CAAC------------------------UUCAUGGGUUCGUGUGUGGGCAACUUCAUUGACUCGUGAGUGGGCAUCUUCAUGGACUCGUGAGUGGGCGUCUUCAUCGACUCCUG------
..((------------------------(.((((((((((((.....((.(((.(((......))))))..)).....)))))))))))))))(((.(((......))).))).------ ( -30.80)
>DroSec_CAF1 31589 114 + 1
CAACUUCAUGGGUUCGGGUGUGGGCAACUUCAUGGGUUCGUGUGUCGGCAACUUCAUGGACUCGUGAGUGGGCAUCUUCAUGGACUCGUGAGUGGGCGUCUUCAUCGACUCCUG------
..(((.(((((((((((((((((....))(((((((((((((....(....)..)))))))))))))....))))))....))))))))))))(((.(((......))).))).------ ( -44.30)
>DroEre_CAF1 23962 96 + 1
CAUC------------------------UUUAUGGGCUCGUGAGUGGGCCUAUUCAUGGACUCGUGAGUGGGCAUCUUCAUGGACUCGUGAGUGGGUCUAUUCAUGGACUCGUGAGUGGG
(((.------------------------.(((((((..(((((((((((((((((((((..(((((((........)))))))..)))))))))))))))))))))..)))))))))).. ( -46.40)
>consensus
CAAC________________________UUCAUGGGUUCGUGUGUGGGCAACUUCAUGGACUCGUGAGUGGGCAUCUUCAUGGACUCGUGAGUGGGCGUCUUCAUCGACUCCUG______
............................((((((((((((((.....((...((((((....))))))...)).....)))))))))))))).(((((.......)).)))......... (-24.85 = -24.63 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:24 2006