Locus 5704

Sequence ID 3L_DroMel_CAF1
Location 15,590,786 – 15,590,906
Length 120
Max. P 0.692850
window9023

overview

Window 3

Location 15,590,786 – 15,590,906
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 99.00
Mean single sequence MFE -23.22
Consensus MFE -22.94
Energy contribution -23.14
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.26
Structure conservation index 0.99
SVM decision value 0.33
SVM RNA-class probability 0.692850
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15590786 120 - 23771897
GGCGCAGCGUGUGGCUUAAUGGGUAGUUUUAAAAUUAACCACAGCGAAAAGAAAGAGCAGAAAAAACCGAAGAAGUCAAAGUCUGAGAAUGGAGCAAAAUUCAAUUAAAAGCCAGCAACA
(((.((((...((((((..(((((.(((........))).)).((...........))........)))...))))))..).))).((((........))))........)))....... ( -22.50)
>DroSec_CAF1 14042 120 - 1
GGCGCAGCGUGUGGCUUUAUGGGUAGUUUUAAAAUUAACCACAGCGAAAAGAAAGAGCAGAAAAAACCGAAGAAGUCAAAGUCUGAGAAUGGAGCAAAAUUCAAUUAAAAGCCAGCAACA
(((.((((...(((((((.(.(((.(((........)))....((...........)).......))).).)))))))..).))).((((........))))........)))....... ( -23.40)
>DroSim_CAF1 14013 120 - 1
GGCGCAGCGUGUGGCUUUAUGGGUAGUUUUAAAAUUAACCACAGCGAAAAGAAAGAGCAGAAAAAACCGAAGAAGUCAAAGUCUGAGAAUGGAGCAAAAUUCAAUUAAAAGCCAGCAACA
(((.((((...(((((((.(.(((.(((........)))....((...........)).......))).).)))))))..).))).((((........))))........)))....... ( -23.40)
>DroEre_CAF1 13999 119 - 1
GGCGCAGCGUGUGGCUUUAUGGGUAGUUUUAAAAUUAACCACAGCGAAAAGAAAGAGCAGAAA-AACCGAAGAAGUCAAAGUCUGAGAAUGGAGCAAAAUUCAAUUAAAAGCCAGCAACA
(((.((((...(((((((.(.(((.(((........)))....((...........)).....-.))).).)))))))..).))).((((........))))........)))....... ( -23.40)
>DroYak_CAF1 15342 120 - 1
GGCGCAGCGUGUGGCUUUAUGGGUAGUUUUAAAAUUAACCACAGCGAAAAGAAAGAGCAGAAAAAACCGAAGAAGUCAAAGUCUGAGAAUGAAGCAAAAUUCAAUUAAAAGCCAGCAACA
(((.((((...(((((((.(.(((.(((........)))....((...........)).......))).).)))))))..).))).((((........))))........)))....... ( -23.40)
>consensus
GGCGCAGCGUGUGGCUUUAUGGGUAGUUUUAAAAUUAACCACAGCGAAAAGAAAGAGCAGAAAAAACCGAAGAAGUCAAAGUCUGAGAAUGGAGCAAAAUUCAAUUAAAAGCCAGCAACA
(((.((((...(((((((.(.(((.(((........)))....((...........)).......))).).)))))))..).))).((((........))))........)))....... (-22.94 = -23.14 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:07 2006