Locus 6643

Sequence ID 3R_DroMel_CAF1
Location 17,452,741 – 17,452,838
Length 97
Max. P 0.791790
window10813

overview

Window 3

Location 17,452,741 – 17,452,838
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 87.53
Mean single sequence MFE -22.26
Consensus MFE -15.60
Energy contribution -16.00
Covariance contribution 0.40
Combinations/Pair 1.11
Mean z-score -2.24
Structure conservation index 0.70
SVM decision value 0.59
SVM RNA-class probability 0.791790
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17452741 97 + 27905053
AAAUGCGCAACGGACAAGCGAACGGGCGAUUGUUUGUAUGUGGAAAUGCAAAUAAAUACGAAUCGAAAGGUAAUACCAAAAGAAAAAAGUUUCGCGA
.....(((...((....((......))..((((((((((......))))))))))......(((....)))....))....((((....))))))). ( -20.10)
>DroSec_CAF1 5254 87 + 1
-------CAACCGACAAGCGAACGGGCGAAUGUUUGUAUGUGGAAAUGCAAAUAAAUACGAAUCGAAAGGUAAUACCGAAAG---ACAGUUUCGCGA
-------...(((.........)))((((((((((((((......))))))))).......(((....))).....(....)---.....))))).. ( -19.80)
>DroSim_CAF1 5302 97 + 1
AAAUGCGAAACCGACAAGCGAACGGGCGAAUGUUUGUAUGUGGAAAUGCAAAUAAAUACGAAUCGAAAGGUAAUACCGAAAGAAAACAGUUUCGCGA
...((((((((((.....))..(((.....(((((((((......))))))))).......(((....)))....)))..........)))))))). ( -25.10)
>DroEre_CAF1 5304 93 + 1
AAAUGCGCAACUGACAAGCGGACGGGCGAAUGUUUGUAUGUGGUAAUGCAAA----UACGAAUUGAAAGGUAAUGGCGUAAGAAAACAGUUUCGCGA
...((((.((((((((.(((((((......))))))).)))....((((...----(((..........)))...)))).......))))).)))). ( -22.70)
>DroYak_CAF1 5270 97 + 1
AAAUGCGCAACUGACCAGCGGACGGGCGAAUGUUUGUAUGUGGUAAUGCAAAUAUAUACGAAUCGAAAGGUAAUGGCGAAAGAAAAAAGUUUCGCGA
...((((.((((..(((((......))..((((((((((......))))))))))......(((....)))..)))(....).....)))).)))). ( -23.60)
>consensus
AAAUGCGCAACCGACAAGCGAACGGGCGAAUGUUUGUAUGUGGAAAUGCAAAUAAAUACGAAUCGAAAGGUAAUACCGAAAGAAAACAGUUUCGCGA
.................(((((((......(((((((((......)))))))))....)).(((....)))...................))))).. (-15.60 = -16.00 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:38 2006