Locus 1419

Sequence ID 2R_DroMel_CAF1
Location 5,479,938 – 5,480,058
Length 120
Max. P 0.687876
window2429

overview

Window 9

Location 5,479,938 – 5,480,058
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.89
Mean single sequence MFE -48.44
Consensus MFE -35.47
Energy contribution -37.03
Covariance contribution 1.56
Combinations/Pair 1.17
Mean z-score -1.68
Structure conservation index 0.73
SVM decision value 0.32
SVM RNA-class probability 0.687876
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5479938 120 + 20766785
GGGAGAUUCCGGUAGCCCGCUGAUGGCUUCGGUGGGCAGGGGUGCUGAUCAAUUUUAUUACCUAGCCGGAAUAACGUCCUACGGAGGGGGACCCUCCAGUUACGGAUAUGGGCCAGCGGU
((...((((((((.(((((((((.....)))))))))..(((((.(((......))).))))).))))))))...((((.((((((((...)))))).))...)))).....))...... ( -51.40)
>DroSim_CAF1 7546 120 + 1
GGGCGAUUCCGGUAGCCCGCUGAUGGCAUCGGUGGGCAGGGGUGCUGGUCAAUUUUAUUACUUAGCCGGAAUAACCUCCUACGGAGGGGGCCCCUCCAGUUACGGAUGUGGGCCAGCGGU
..((.((((((((.((((((((((...))))))))))..(((((.(((......))).))))).))))))))..(((((...))))).(((((((((......))).).))))).))... ( -54.70)
>DroEre_CAF1 6900 120 + 1
AGGCGAUUCCGGUGGACCGCUGAUGGCCUCAGUGGGAAGGGCCGAUCAUCAAUUUUAUUACCUAGCCGGAAUAACUUCCUACGGAGGGGAUGCCUCUAGUUAUGGAUGUGGGCCAGCGGU
.(((.((((((((...(((((((.....)))))))..(((....................))).)))))))).((.(((.(((((((.....))))).))...))).))..)))...... ( -40.25)
>DroYak_CAF1 7271 117 + 1
CGGCGAUUCCGGUGGCCCGCUGAUGCUCUCAGUGGGACGGGACGUUCAUCAAUUUUAUUACCUAGCCGGAAUAACCUCCUACGGAGGAGGUCCUCC---GUAUGGAAGUGGACCAGCGAU
.((((.(((((....((((((((.....)))))))).)))))))))..................((.((....((.(((((((((((....)))))---))).))).))...)).))... ( -47.40)
>consensus
GGGCGAUUCCGGUAGCCCGCUGAUGGCCUCAGUGGGAAGGGGCGCUCAUCAAUUUUAUUACCUAGCCGGAAUAACCUCCUACGGAGGGGGUCCCUCCAGUUACGGAUGUGGGCCAGCGGU
..((.((((((((.(((((((((.....))))))))).(((...................))).))))))))..(((((...))))).(((((.(((......)))...))))).))... (-35.47 = -37.03 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:23 2006