Locus 5256

Sequence ID	3R_DroMel_CAF1
Location	13,710,509 – 13,710,612
Length	103
Max. P	0.834637

overview

Window 2

Location	13,710,509 – 13,710,612
Length	103
Sequences	4
Columns	105
Reading direction	forward
Mean pairwise identity	92.31
Mean single sequence MFE	-28.02
Consensus MFE	-23.15
Energy contribution	-23.65
Covariance contribution	0.50
Combinations/Pair	1.09
Mean z-score	-1.96
Structure conservation index	0.83
SVM decision value	0.73
SVM RNA-class probability	0.834637
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13710509 103 + 27905053
GAGUUUAG-AAAGGGAUCGGAUAUGUUGGUA-GUAAUGCCACAUAUUAUUACCAAAUGAUCGUGAUUUAUCAAUAGACAGCGCUCGUCAUGUGGUGAGUUUUGAG
..(((((.-....(((((((((...((((((-((((((.....))))))))))))...))).)))))).....)))))...((((..(....)..))))...... ( -29.00)
>DroSec_CAF1 20299 103 + 1
GAGUGUAG-AAAGGGAUCGGAUAUGUUGGUA-GUAAUGCCACAUAUUAUUACCAAAUGAGCGUGAUUUUUCAAAAGACAGCGCUCGUCAUGUGGUGAGUUUUGAG
........-.......((((((((((.((((-....))))))))))).((((((.((((((((..((((....))))..))))))))....))))))....))). ( -30.60)
>DroSim_CAF1 22086 103 + 1
GAGUGUAG-AAAGGGAUCGGAUAUGUUGGUA-GUAAUGCCACAUAUUGUUACCAAAUGAGCGUGAUUUUUCAAAAGACAGCGCUCGUCAUGUGGUGAGUUUUGAG
........-.......((((((((((.((((-....))))))))))).((((((.((((((((..((((....))))..))))))))....))))))....))). ( -30.50)
>DroEre_CAF1 20875 105 + 1
AAGUGUAGGAAAGGGUUCGGAUAUGUUGGAACGUAAUGGAACAUAUCAUUGCCAAAUGAGCGUGAUUUUUCAAAAGACAGCGCCCGUCAUGUGGUGAGUUUUGAA
........((....((((.(.(((((....))))).).))))...)).(..(((.((((((((..((((....))))..))))...)))).)))..)........ ( -22.00)
>consensus
GAGUGUAG_AAAGGGAUCGGAUAUGUUGGUA_GUAAUGCCACAUAUUAUUACCAAAUGAGCGUGAUUUUUCAAAAGACAGCGCUCGUCAUGUGGUGAGUUUUGAG
................((((((((((.((((.....))))))))))).((((((.((((((((..((((....))))..))))))))....))))))....))). (-23.15 = -23.65 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:26 2006