Locus 3488

Sequence ID 3R_DroMel_CAF1
Location 9,424,110 – 9,424,200
Length 90
Max. P 0.768486
window5606

overview

Window 6

Location 9,424,110 – 9,424,200
Length 90
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 88.59
Mean single sequence MFE -29.23
Consensus MFE -26.63
Energy contribution -26.63
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.91
SVM decision value 0.52
SVM RNA-class probability 0.768486
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9424110 90 - 27905053
------------GGACAC--AGUUACGGACAAACGGUCAGAAUUACGGACACAAGGACCAGCGGACAGUUGGACACUUGGGAAAGCAUUCCGUCCGACUUGUGA
------------...(((--((.....(((.....))).......(((((.((((..(((((.....)))))...))))((((....)))))))))..))))). ( -29.40)
>DroSec_CAF1 53862 90 - 1
------------GGACAC--AGUUACGGACAAACGGUCAGAAUUACGGACACAAGGACCAGCGGACAGUUGGACACUUGGGAAAGCAUUCCGUCCGACUUGUGA
------------...(((--((.....(((.....))).......(((((.((((..(((((.....)))))...))))((((....)))))))))..))))). ( -29.40)
>DroEre_CAF1 59949 102 - 1
GGACAGAGUUACGGACAGAG--UUACGGACAAACGGUCAGAAUUACGGACACAAGGACCAGCGGACAGUUGGACACUUGGGAAAGCAUUCCGUCCGACUUGUGA
..((((((((...(((...(--((.......))).)))..)))).(((((.((((..(((((.....)))))...))))((((....)))))))))..)))).. ( -28.90)
>consensus
____________GGACAC__AGUUACGGACAAACGGUCAGAAUUACGGACACAAGGACCAGCGGACAGUUGGACACUUGGGAAAGCAUUCCGUCCGACUUGUGA
......................((((((((.....))).......(((((.((((..(((((.....)))))...))))((((....)))))))))...))))) (-26.63 = -26.63 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:23 2006