Locus 2906

Sequence ID 3R_DroMel_CAF1
Location 7,786,397 – 7,786,517
Length 120
Max. P 0.849761
window4685

overview

Window 5

Location 7,786,397 – 7,786,517
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.90
Mean single sequence MFE -22.00
Consensus MFE -16.59
Energy contribution -16.65
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.98
Structure conservation index 0.75
SVM decision value 0.78
SVM RNA-class probability 0.849761
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7786397 120 - 27905053
CUCAAAAACUUAAAACAAACUUAUAAUAUAACCCAUAUGUUAUAACCCAUUGAUGAACAAAAAUUAGACUCUUUGGCCUUAGUCGACCUCCUCGACCGUGGGUCCAGAGUAGCCUCCAAA
...............(((..((((((((((.....))))))))))....))).............((.(((((((((((..(((((.....)))))...))).)))))).)).))..... ( -23.50)
>DroSec_CAF1 8313 106 - 1
CUCAAAAACUUAAAACAAACUUAUAAUAUAA--------------CCCAUUGAUGAACAAAAAUUAGUGUCUUUGGCCUUAGUCGACCUCCUCGACCGUGGGUCCAGAGUAGCCUCCAAA
...............................--------------..(((((((........))))))).(((((((((..(((((.....)))))...))).))))))........... ( -21.00)
>DroSim_CAF1 7535 120 - 1
CUCAAAAACUUAAAACGAACUUAUAAUAUAACCCAUAUGUUAUAACCCAUUGAUGAACAAAAAUUAGUCUCUUUGGUCUUAGUCGACCUCCUCGACCGUGGGUCCAGAGUAGCCUCCAAA
....................((((((((((.....)))))))))).....................((..((((((.(((((((((.....)))))..)))).))))))..))....... ( -22.30)
>DroEre_CAF1 8375 100 - 1
CUCAAAAACUUAA-----ACUUAGAAU---------------UAACCCAUUGAUGAACAAAUAUUCGUCUCUUUGGCCUUAGUCGACCUCCUCGACCGUGGGUCCAGAGUAGCCUCCAAA
.............-----.........---------------.........((((((......)))))).(((((((((..(((((.....)))))...))).))))))........... ( -21.20)
>consensus
CUCAAAAACUUAAAACAAACUUAUAAUAUAA___________UAACCCAUUGAUGAACAAAAAUUAGUCUCUUUGGCCUUAGUCGACCUCCUCGACCGUGGGUCCAGAGUAGCCUCCAAA
..................................................................((..(((((((((..(((((.....)))))...))).))))))..))....... (-16.59 = -16.65 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:32 2006