Locus 5760

Sequence ID 3R_DroMel_CAF1
Location 14,990,657 – 14,990,762
Length 105
Max. P 0.559514
window9438

overview

Window 8

Location 14,990,657 – 14,990,762
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.70
Mean single sequence MFE -25.93
Consensus MFE -16.51
Energy contribution -18.51
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.64
SVM decision value 0.05
SVM RNA-class probability 0.559514
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14990657 105 - 27905053
CAAUUAUAACAAAAGCGACCACUGUGCGUGAGCGCGGGAAAGAGAAACAAACA--------CCGCAAUC------G-CAAGUGUGUUUGACCAAUAAGGCAAAUAAAUAAAACAUGCUCG
.....................((((((....))))))....(((......(((--------(.((....------)-)..))))(((((.((.....)))))))............))). ( -23.80)
>DroSec_CAF1 10016 103 - 1
CAAUAAUGACGAA--UGACCACUGUGCGUGAGCGCGGGAAAGAGAAACAAACA--------CCGCAAUC------G-CAAGUGUGUUUGACCAAUAAGGCAAAUAAAUACAACAUGCUCG
.............--......((((((....))))))....(((......(((--------(.((....------)-)..))))(((((.((.....)))))))............))). ( -23.80)
>DroEre_CAF1 9678 120 - 1
CAAUUAUGACAACAACGCCCACUGUGCGUGAGCGCGGGAAAGAGAAACAAACACACUCGAGCCGCAAUCGCCAUCGCCAAGUGUGUUUGACCAAUAAGGCAAAUAAAUACAAAACGCUCG
................(((..((((((....))))))..........(((((((((((((...((....))..)))...))))))))))........))).................... ( -34.20)
>DroYak_CAF1 10040 114 - 1
CAAUUAUGACAACAACGCCCACUGUGCUCGAACGCGGGAAAGAGAAACAAACACACUCGAGCCGCAAUC------GCCUAGUGUGUUUGACCAAUAAAGCAAAUAAAUACAACAUGCUCG
................((...(((((......)))))..........((((((((((.(.((.......------))).)))))))))).........)).................... ( -21.90)
>consensus
CAAUUAUGACAAAAACGACCACUGUGCGUGAGCGCGGGAAAGAGAAACAAACA________CCGCAAUC______G_CAAGUGUGUUUGACCAAUAAGGCAAAUAAAUACAACAUGCUCG
.....................((((((....))))))....(((...(((((((((........................))))))))).((.....)).................))). (-16.51 = -18.51 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:03 2006