Locus 3340

Sequence ID X_DroMel_CAF1
Location 8,931,898 – 8,932,014
Length 116
Max. P 0.572312
window5470

overview

Window 0

Location 8,931,898 – 8,932,014
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.23
Mean single sequence MFE -35.72
Consensus MFE -22.14
Energy contribution -22.34
Covariance contribution 0.20
Combinations/Pair 1.43
Mean z-score -1.64
Structure conservation index 0.62
SVM decision value 0.08
SVM RNA-class probability 0.572312
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8931898 116 + 22224390
UUCUUCCAGAACAAUCUCGACAAGAGCGAGUUCAUCAGGAAGCAGGCGAAGAAGGCCAAGAAUGCGGAAAAG---GC-UCUGGCUGCCAAGAGCGACAGCGAUGCCUGAGUUCGCGCUAG
....(((.((((...(((.....)))...))))....)))(((.(((.......)))......(((((..((---((-..(.((((.(......).)))).).))))...)))))))).. ( -34.60)
>DroSec_CAF1 3621 116 + 1
UUCUUCCAGAACAAUCUCAACAAGAGCGAGUUCAUCAAGAAGCAGGUGAAACAGGCCAAGAAAGCGGAAAAG---GC-UCUGGCUGCCAAGAGCGACAGCGAUGCCUGAGUUCGCGCUAG
.((((...((((...(((.....)))...))))...))))(((.(((.......)))......(((((..((---((-..(.((((.(......).)))).).))))...)))))))).. ( -32.20)
>DroEre_CAF1 3629 116 + 1
UUCUUCCAGAACAAUCUCGACAAGAGCGAGUUCAUCAAGAAGCAGGCCAAAAAGGCCAAGAAAGCGGAGAAG---GC-UCUGGCUGCCAAGGGCGAAAGCGGGGCCUGAGUCCGCGCUAG
.((((...((((...(((.....)))...))))...))))(((.((((.....))))......(((((..((---((-((((.(((((...)))...))))))))))...)))))))).. ( -44.70)
>DroYak_CAF1 3711 116 + 1
UUCUUCCAGAACAAUCUCGACAAGAGCGAGUUCAUCAAGAAGCAGGCCAAGAGGGCCAAGAAAGCGGAGAAG---GC-UCUGGCUGCCAAGGGCGAAAGCGAGGCCUAAGCUCGCGCUAG
(((((...((((...(((.....)))...))))...)))))...((((.....)))).....(((((((.((---((-.((.((((((...)))...))).))))))...))).)))).. ( -40.50)
>DroAna_CAF1 3519 116 + 1
UUCUUCCAGAACAACCUUGACAAGAGCGAGUUUCUCAAAAAGCAGGCCAAAAAGGCUAAAAAGUUGGACAAAAAAGCCACAAGUU----CGUGAAGCUACGCCUUACACAGGGGAUAUUC
..............(((((..(((.(((((((((.(........((((.....))))........((((.............)))----)).)))))).))))))...)))))....... ( -26.62)
>consensus
UUCUUCCAGAACAAUCUCGACAAGAGCGAGUUCAUCAAGAAGCAGGCCAAAAAGGCCAAGAAAGCGGAAAAG___GC_UCUGGCUGCCAAGAGCGACAGCGAGGCCUGAGUUCGCGCUAG
...((((.((((...(((.....)))...))))...........((((.....))))........))))..........((((((((.....)))...(((((.......)))))))))) (-22.14 = -22.34 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:55 2006