Locus 6063

Sequence ID 3L_DroMel_CAF1
Location 16,142,351 – 16,142,470
Length 119
Max. P 0.632437
window9728

overview

Window 8

Location 16,142,351 – 16,142,470
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.45
Mean single sequence MFE -27.91
Consensus MFE -21.80
Energy contribution -21.48
Covariance contribution -0.32
Combinations/Pair 1.08
Mean z-score -2.15
Structure conservation index 0.78
SVM decision value 0.20
SVM RNA-class probability 0.632437
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16142351 119 + 23771897
AGGCAGUCGUCGCAACGUGAGCGACUUCAAGGACAACUACGGCCAACAACAAGAACAAGUGCCAAA-AAAAUCAACGAAAAUGCGCUAUUAAGGCAAUUUUUUCGGUUGGAAUCCAACCA
.((((...(((((.......))))).....((.(......).))...............))))...-.........((((((((.((....)))))...)))))((((((...)))))). ( -28.00)
>DroSec_CAF1 4559 116 + 1
AGGCAGU---CGCAACGUGAGCGACUUCAAGGACAACUACGGCCAACAACAAGAACAAGUGCCAAA-AAAAUCAACGAAAAUGCGCUAUUAAGGCAAUUUUUUCGGUUGGAAUCCAACCA
.((((((---(((.......))))).....((.(......).))...............))))...-.........((((((((.((....)))))...)))))((((((...)))))). ( -27.90)
>DroSim_CAF1 5329 116 + 1
AGGCAGU---CGCAACGUGAGCGACUUCAAGGACAACUACAGCCAACAACAAGAACAAGUGCCAAA-AAAAUCAACGAAAAUGCGCUAUUAAGGCAAUUUUUUCGGUUGGAAUCCAACCA
.((((((---(((.......))))).....((.(.......)))...............))))...-.........((((((((.((....)))))...)))))((((((...)))))). ( -27.40)
>DroEre_CAF1 3853 116 + 1
AGGCAGU---CGCAACGUGAGCGACUUCAAGGACAACUACAGCCAACAACAAGAACAAGUGCCAAA-AAAAUCAACAAAAAUGCGCUAUUAAGGCAAUUUUUUCGGUUGGAAUCCAACCA
.((((((---(((.......))))))...((.....))...)))........(((.(((((((...-.........................))).)))).)))((((((...)))))). ( -26.69)
>DroYak_CAF1 4569 117 + 1
AGGCAGU---CGCAACGUGAGCGACUUCAAGGACAACUACGGCCAACAACAAGAACAAGUGCCAAAAAAAAUCAACGAAAAUGCGCUAUUAAGGCAAUUUUUUCGGUUGGAAUCCAGCCA
.((((((---(((.......))))))....(((((((...((((..............).)))............(((((((((.((....)))))...))))))))))...))).))). ( -29.54)
>consensus
AGGCAGU___CGCAACGUGAGCGACUUCAAGGACAACUACGGCCAACAACAAGAACAAGUGCCAAA_AAAAUCAACGAAAAUGCGCUAUUAAGGCAAUUUUUUCGGUUGGAAUCCAACCA
.((((.....(((.......))).......((.(.......)))...............)))).............((((((..(((.....))).))))))..((((((...)))))). (-21.80 = -21.48 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:51 2006