Locus 4824

Sequence ID X_DroMel_CAF1
Location 12,525,743 – 12,525,857
Length 114
Max. P 0.868175
window7883

overview

Window 3

Location 12,525,743 – 12,525,857
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 74.01
Mean single sequence MFE -51.15
Consensus MFE -28.94
Energy contribution -31.00
Covariance contribution 2.06
Combinations/Pair 1.25
Mean z-score -1.96
Structure conservation index 0.57
SVM decision value 0.86
SVM RNA-class probability 0.868175
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12525743 114 - 22224390
AUGGGCAUGGUGGG---AAUUGGUCAUCCGGGCCCGAUGGCCCACGCAAGUUCCGCCGGAGGAAUCGGUGUGGACAAGGCGACCAUAACGCCGGUUGUCAAGAG---CUCUAGUGGAUCA
.(((((....((((---...(((....)))..))))...)))))(((..((((((((((.....)))))).))))..(((((((........))))))).....---.....)))..... ( -42.60)
>DroSec_CAF1 55326 117 - 1
AUGGGCGUGGUGGGGCAACUUGGUCAUCCGGGCCUUAUGGCCCAUGCAAGUUCCGCCGGAGGAAUCGGUGUGGACAAGGCCACCAUAACGCCGGUUGUCAAGAG---CUCUAGCGGAUCA
((.(((((.(((((((..((((..((((((((((....)))))......(((((......))))).)).)))..))))))).)))).))))).)).(((....(---(....)).))).. ( -48.70)
>DroEre_CAF1 55465 117 - 1
AUGGGCGUGGUGGGCCAGCUUGGGCAUCCGGGCCUAAUGGCGCAUGCCAGUGCCGCUGGAGGAGUCGGCGUGGACAAGGCCACCAUAACACCGGUGGUCAAGAG---CUCCAGCGGCGCC
.(((((.(((...(((......)))..))).))))).((((....))))((((((((((((..(((......)))..(((((((........))))))).....---)))))))))))). ( -64.90)
>DroAna_CAF1 65910 94 - 1
CUGGGCGUGG---G---UCUGGCCCAUCCCGGCCUGAUGGGCCACG------------------GCGGGGUGGACAAGGCCACCAUAACGCCGGUGGUGAAGAGCGGCUCCAGUGC--CA
..(((.((((---(---.....))))))))((((((..(((((.((------------------(((.(((((......)))))....)))))...((.....)))))))))).))--). ( -48.40)
>consensus
AUGGGCGUGGUGGG___ACUUGGUCAUCCGGGCCUGAUGGCCCACGCAAGUUCCGCCGGAGGAAUCGGUGUGGACAAGGCCACCAUAACGCCGGUGGUCAAGAG___CUCCAGCGGAUCA
.(((((.(((...(((......)))..))).))))).(((.((((((..(((((......)))))..))))))....(((((((........)))))))..........)))........ (-28.94 = -31.00 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:55 2006