Locus 8563

Sequence ID 3R_DroMel_CAF1
Location 22,879,207 – 22,879,310
Length 103
Max. P 0.500000
window13759

overview

Window 9

Location 22,879,207 – 22,879,310
Length 103
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 78.16
Mean single sequence MFE -21.61
Consensus MFE -15.18
Energy contribution -15.93
Covariance contribution 0.75
Combinations/Pair 1.18
Mean z-score -1.48
Structure conservation index 0.70
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22879207 103 + 27905053
-------------UGUGCAGCUUUAAAAUUAGCAGCUCUUCAACUUUUGAGUUGGUUCACUAAAGUUAUUAUAAGUAAUAAGCACCCACAAGCCUUUGAUAGCUUUGCUGAAAUAA
-------------.(.((.(((........))).)).).((((((....))))))((((.(((((((((((.(((......((........)))))))))))))))).)))).... ( -20.40)
>DroSec_CAF1 24601 114 + 1
AGGAAAAUGUAAAAGCGCAGCUUUAACAUAAGUAGCUUCUAAACUUAUGAGUUGCUCCACUAAAGUUAUUAUAAAUAAUAAGCAUCCACAACU--CUGAUAGCUGUGCUAAAAUAA
.............((((((((((((..((((((.........))))))((((((..........(((((.....))))).........)))))--)))).)))))))))....... ( -22.91)
>DroSim_CAF1 25324 116 + 1
AGGAAACUGUAAAAGCGCAGCUUUAACAUAAGUAGCUUCUUAACUUUUGAGUUGCUCCACUAAAGUUAUUAUAAAUAAUAAGCAUCCACAACCCUUUGAUAGCUUUGCUGAAAUAA
((....)).....((((((((((.....((((......))))......)))))))......((((((((((.........................)))))))))))))....... ( -21.01)
>DroYak_CAF1 28706 109 + 1
AGGAAACCGUAAAAACGCAGCUUUAACAUUAGCAGCUCUUAAACUUUUGAGUUGGAUCACUAAAGAUAUUAUAAAUAAUGAUCAUC-------CUUUGAUAGCUGUGCUGAAAUGU
.(....)........(((((((....(((((.((((((..........)))))).(((......)))........)))))((((..-------...)))))))))))......... ( -22.10)
>consensus
AGGAAACUGUAAAAGCGCAGCUUUAACAUAAGCAGCUCCUAAACUUUUGAGUUGCUCCACUAAAGUUAUUAUAAAUAAUAAGCAUCCACAACCCUUUGAUAGCUGUGCUGAAAUAA
.............(((((((((((((....((((((((..........))))))))........(((((((....))))).))............)))).)))))))))....... (-15.18 = -15.93 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:11 2006