Locus 3459

Sequence ID X_DroMel_CAF1
Location 9,274,627 – 9,274,725
Length 98
Max. P 0.640789
window5661

overview

Window 1

Location 9,274,627 – 9,274,725
Length 98
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 86.24
Mean single sequence MFE -29.98
Consensus MFE -21.73
Energy contribution -22.60
Covariance contribution 0.87
Combinations/Pair 1.04
Mean z-score -1.62
Structure conservation index 0.72
SVM decision value 0.22
SVM RNA-class probability 0.640789
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9274627 98 + 22224390
CA-------GUGUUCAGUAAUAAAGUGAAGCGGCCAUUUCCCGGUAACAGGUCAAAGGUGAGCGACAGAGAGGGAAAGCCGGGAAAGCGGCAAUG---------GCUGGCAAAG
..-------((.((((.(.....).)))).((((((((((((.......(.(((....))).)........))))))((((......))))..))---------)))))).... ( -28.56)
>DroSec_CAF1 57153 98 + 1
CA-------GUGUUCAGUAAUAAAGUGAAGCGGCCAUUUCCCGGUAACAGGUCAAAGGUGAGCGACAGAGAGGGAAAGCCGGGAAAGCUGCGAUG---------GCUGGGAAAG
((-------((.((((.(.....).))))(((((..(((((((((....(.(((....))).)..(......)....))))))))))))))....---------))))...... ( -28.90)
>DroEre_CAF1 63415 107 + 1
CA-------GUGUUCAGUAAUAAAGUGAAGCGGCCAUUUCCCGUUAACAGGUCAAAGGUGAGCGACAGAGAGGGAUAGCCGGGAAAGCCGGGAUAGCUGGGAAAGCUGGGAAAG
((-------((.((((((............((((....((((.......(.(((....))).)........))))..))))((....))......))))))...))))...... ( -26.96)
>DroYak_CAF1 54422 114 + 1
CAGUGUUCAGUGUUCAGUAAUAAAGUGAAGCGGCCAUUUCCCGGUAACAGGUCAAAGGUGAGCGACGGCGAGGGAAAGCCGGGAAAGCUGGGAUAGCCGGGAUAGCUGGGAAAG
((((((((....((((.(.....).)))).((((....(((((((....(.(((....))).)..((((........)))).....)))))))..))))))))).)))...... ( -35.50)
>consensus
CA_______GUGUUCAGUAAUAAAGUGAAGCGGCCAUUUCCCGGUAACAGGUCAAAGGUGAGCGACAGAGAGGGAAAGCCGGGAAAGCUGCGAUA_________GCUGGGAAAG
.............(((((...........(((((..(((((((((....(.(((....))).)..(.....).....)))))))))))))).............)))))..... (-21.73 = -22.60 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:55 2006