Locus 4006

Sequence ID 3L_DroMel_CAF1
Location 11,679,602 – 11,679,693
Length 91
Max. P 0.500000
window6239

overview

Window 9

Location 11,679,602 – 11,679,693
Length 91
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 81.50
Mean single sequence MFE -23.47
Consensus MFE -15.60
Energy contribution -15.82
Covariance contribution 0.22
Combinations/Pair 1.12
Mean z-score -1.37
Structure conservation index 0.66
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11679602 91 + 23771897
AACUAU-GGGAUUGCGAG---------------AGAGCUUGCAAACGCCACCAAAAGCUCAAGGUUCCGCACCGCCCACUGCCGCCCACUUUCGACCUCCCAACUCU
.....(-((((...((((---------------(((((((..............))))))..(((...(((........))).)))...)))))...)))))..... ( -23.44)
>DroSec_CAF1 4816 91 + 1
AACUAU-GGGAUUGUGAG---------------AGAGCUUGCAAACGACACCAAAAGCUCAAGGUUCCGCACCGCCCACUGACGCCCACUUUCGACCUCCCAACUCC
.....(-((((...((((---------------(((((((..............))))))..(((.....)))................)))))...)))))..... ( -20.14)
>DroSim_CAF1 4224 92 + 1
AACUAUUGGGAUUGUGAG---------------AGAGCUUGCAAACGACACCAAAAGCUCAAGGUUCCGCACCGCCCACUGACGCCCACUUUCGACCUCCCAACUCC
.....((((((...((((---------------(((((((..............))))))..(((.....)))................)))))...)))))).... ( -20.74)
>DroEre_CAF1 5946 89 + 1
AACUAU-GGGAUUGUGAG---------------AGAGCUUGCA-ACGACACCAAAAGCUCAAGGUUCCGCACCGCCCACUGCCGCCCACUUUCGACCUCCCAACUU-
.....(-((((...((((---------------(((((((...-..........))))))..(((...(((........))).)))...)))))...)))))....- ( -21.82)
>DroYak_CAF1 5143 81 + 1
AACUAU-GGGAUUGUGAG---------------AGAGCUUGCAAACGCCACCAAAAGCUCAAGGUUCCGCACCGCC----------CACUUUCGACCUCCCAACUCC
.....(-((((...((((---------------(((((((..............))))))..(((.....)))...----------...)))))...)))))..... ( -20.14)
>DroAna_CAF1 4680 100 + 1
AAUGGA-AGGGGUGUGAGUGAGUUUGGGCUGGCAGAGCUUGCA-ACGACACCAAAAGCUCAAGGUUCCGCACCGCCCAAUCAGCACCAC--CCAACCACCCACC---
..(((.-..(((((((..(((..((((((.(((.((((((...-..........))))))..(....))).).))))))))).)).)))--))..)))......--- ( -34.52)
>consensus
AACUAU_GGGAUUGUGAG_______________AGAGCUUGCAAACGACACCAAAAGCUCAAGGUUCCGCACCGCCCACUGACGCCCACUUUCGACCUCCCAACUCC
.......((((...(((.................((((((..............))))))..(((.....)))..................)))...))))...... (-15.60 = -15.82 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:12 2006