Locus 4063

Sequence ID 2L_DroMel_CAF1
Location 11,748,203 – 11,748,307
Length 104
Max. P 0.856028
window6403

overview

Window 3

Location 11,748,203 – 11,748,307
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.46
Mean single sequence MFE -29.82
Consensus MFE -11.62
Energy contribution -12.50
Covariance contribution 0.88
Combinations/Pair 1.16
Mean z-score -2.01
Structure conservation index 0.39
SVM decision value 0.81
SVM RNA-class probability 0.856028
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11748203 104 - 22407834
CAGAGACGAAUUAAUCCAUUUUCAGCUGUCUGUCAGGAG------ACUCGGUUGACAGACGGAAACUCGG-AGACUCAGCUUCAAAGAGUA-GA--------ACCUUAAGGUUUUAAGAC
..(((..(((..........)))..(((((((((((...------.).....))))))))))...)))((-((......))))......((-((--------(((....))))))).... ( -27.90)
>DroSec_CAF1 6566 102 - 1
CAGAGACGAAUUAAUCCAUUUUCAGCUGUCUGUCAGGGG------ACUCGGUUGACAGACGGAAAU--GG-GGACUCAGUCCCAAAAAGGA-GA--------ACCUUAACGUUUUAAGAC
..((((((........(((((((..(((((..((((...------.)).))..)))))..))))))--)(-((((...)))))...((((.-..--------.))))..))))))..... ( -33.20)
>DroSim_CAF1 5417 102 - 1
CAGAGACGAAUUAAUCCAUUUUCAGCUGUCUGUCAGGGG------ACUCGGUUGACAGACGGAAAU--GG-AGACUCAGUCCCAAAAAGGA-GA--------ACCUUAACGUUUUAAGAC
..((((((......(((((((((..(((((..((((...------.)).))..)))))..))))))--))-)..............((((.-..--------.))))..))))))..... ( -31.10)
>DroEre_CAF1 13627 103 - 1
CAGAGUCGAAUUAAUCCAUUUUCAGCUGUCUGUCAGGGG------ACUCAGAUGACAGACGGAAAU--GG-AGACUCCGCUCCAAAGACUAGGA--------ACCUUAACGUUUUAAGAC
..((((.((.....(((((((((..(((((.(((((...------.))..))))))))..))))))--))-)...)).))))......((..((--------((......))))..)).. ( -30.10)
>DroAna_CAF1 8245 115 - 1
GGGAGACAAAUUAAUCCGUUUUCAGCAUUCCAUCAUGGCCAAAAGCGUCCAAACAAAGACGGAU----GGCCAAAUAAGUGGGAGAAAGUG-GAAAGGCGACAUUUUAACACUUUAAUAC
.((((((..........))))))....((((((..((((((....((((........))))..)----))))).....)))))).((((((-(((((....).))))..))))))..... ( -26.80)
>consensus
CAGAGACGAAUUAAUCCAUUUUCAGCUGUCUGUCAGGGG______ACUCGGUUGACAGACGGAAAU__GG_AGACUCAGUCCCAAAAAGUA_GA________ACCUUAACGUUUUAAGAC
.........................((((((((((((((.......)))..)))))))))))..........................................(((((....))))).. (-11.62 = -12.50 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:24 2006