Locus 1239

Sequence ID 2L_DroMel_CAF1
Location 3,287,850 – 3,287,953
Length 103
Max. P 0.974547
window2029

overview

Window 9

Location 3,287,850 – 3,287,953
Length 103
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 95.17
Mean single sequence MFE -23.10
Consensus MFE -21.40
Energy contribution -21.90
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.42
Structure conservation index 0.93
SVM decision value 1.73
SVM RNA-class probability 0.974547
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3287850 103 + 22407834
GCCGGUCGUUGAACAUAAAUCUUUGAUUAUU-AUGGUUCGACAAAUGCUUCGUGUCAAUUCACUGAAGCAGACCCAAAUCAAUUAAAUAUCCAUUAUGUAAAUU
...((((((((((((((((((...)))..))-)).)))))))...(((((((((......))).)))))))))).............................. ( -24.80)
>DroSec_CAF1 11872 104 + 1
GCCGGUCGUUAAACAUAAAUCUUUGAUUAUUUUUGGUUCGACAAAUGCUUCGUGUCAAUUCACAGAAGCAGACCCAAAUCAAUUAAAUAUCCAUUAUGCAAAUU
...((((((..(((..((((........))))...)))..))...(((((((((......))).)))))))))).............................. ( -20.70)
>DroSim_CAF1 12238 103 + 1
GCCAGUCGUUGAACAUAAAUCUUUGAUUAUU-UUGGUUCGACAAAUGCUUCGUGUCAAUUCACUGAAGCAGACCCAAAUCAAUUAAAUAUCCAUUAUGCAAAUU
....((((((((((.((((...........)-))))))))))...(((((((((......))).)))))))))............................... ( -21.40)
>DroYak_CAF1 11943 103 + 1
GUCGGUCGUUGAACAUGAAUCUUUGAUUAUU-UUGGUUCGACAAAUGCUUCGUGUCAAUUCACUGAAGCAGACCCAAAUCAAUUAAAUAUCCAUUAUGCAAACC
...(((((((((((...((((...))))...-...)))))))...(((((((((......))).)))))))))).............................. ( -25.50)
>consensus
GCCGGUCGUUGAACAUAAAUCUUUGAUUAUU_UUGGUUCGACAAAUGCUUCGUGUCAAUUCACUGAAGCAGACCCAAAUCAAUUAAAUAUCCAUUAUGCAAAUU
...(((((((((((...((((...)))).......)))))))...(((((((((......))).)))))))))).............................. (-21.40 = -21.90 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:28 2006