Locus 4025

Sequence ID 2R_DroMel_CAF1
Location 13,287,320 – 13,287,410
Length 90
Max. P 0.531677
window6489

overview

Window 9

Location 13,287,320 – 13,287,410
Length 90
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 73.55
Mean single sequence MFE -33.00
Consensus MFE -18.21
Energy contribution -18.46
Covariance contribution 0.25
Combinations/Pair 1.30
Mean z-score -1.60
Structure conservation index 0.55
SVM decision value -0.00
SVM RNA-class probability 0.531677
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13287320 90 + 20766785
GGAGUUUUGGGAAGGAGGUGGGCCUCCAUAAGACCACGACCGGUUGCAAAAGGCAGCCAGCG-AAGGCAUUCCUCCACAUCCACCUC------------------CAUU
((((...((((..(((((...((((.(....(........)((((((.....))))))...)-.))))...)))))...)))).)))------------------)... ( -33.50)
>DroSec_CAF1 14822 102 + 1
GGAGUUUCGGGAAGGAGGUGGGCCGCCAUAAGACCGCGACCGGUUGCAAGAGGCAGCCAGCG-AAGGCAUUCCUCCACAUCCACAUC------CACUGCCAUUUCCAUU
(((......(((.(((((..(((.(((....(((((....)))))......))).))).((.-...))...)))))...)))...))------)............... ( -34.20)
>DroSim_CAF1 14850 102 + 1
GGAGUUUCGGGAAGGAGGUGGGCUGCCAUAAGACCGCGACCGGUUGCAAAAGGCAGCCAGCG-AAGGCAUUCCUCCACAUCCACAUC------CACCGCCAUUUUCAUU
(((......(((.(((((..(((((((....(((((....)))))......))))))).((.-...))...)))))...)))...))------)............... ( -38.80)
>DroEre_CAF1 14999 73 + 1
AGAGUUUCGGAAAGGAGGCG----G-------------GCCGGCUCUAAAAGGCAGCCAGUG-AAGGCAUUCCACCACAUCCACCUC------------------CAUU
.............(((((.(----(-------------(..((((((....)).)))).(((-..((....))..))).))).))))------------------)... ( -23.60)
>DroYak_CAF1 14941 105 + 1
GGAGUUUCGGGAAGGAGGCC----GCCAUAAGACGGCGCCCGGUUCCAAAAGGCAGCCAGUGGAAGGCAUUCCACCACAUCCACCUUCACAUCCACCUCCUCGUCUAUU
((((.....((((((.((.(----(((.......)))).))((((((....)).)))).((((((....))))))........))))).)......))))......... ( -34.90)
>consensus
GGAGUUUCGGGAAGGAGGUGGGC_GCCAUAAGACCGCGACCGGUUGCAAAAGGCAGCCAGCG_AAGGCAUUCCUCCACAUCCACCUC______CAC__CC___U_CAUU
(((((...((((.((..((((............))))..))((((((.....)))))).((.....)).))))...)).)))........................... (-18.21 = -18.46 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:53 2006