Locus 1088

Sequence ID 3L_DroMel_CAF1
Location 3,182,709 – 3,182,802
Length 93
Max. P 0.505084
window1685

overview

Window 5

Location 3,182,709 – 3,182,802
Length 93
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 81.72
Mean single sequence MFE -15.95
Consensus MFE -10.73
Energy contribution -9.97
Covariance contribution -0.75
Combinations/Pair 1.40
Mean z-score -1.55
Structure conservation index 0.67
SVM decision value -0.06
SVM RNA-class probability 0.505084
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3182709 93 + 23771897
AAACAAAA-CCUUUUGAAUAUAAGUAUCUUAUACAUUACAUACAGGUGUUUUUACUUUUAGCUAGUUAUCUAGCUAUUUGAAACCGUUAUUGUC
..((((.(-(((..((((((((((...))))))..)).))...))))(((((......(((((((....)))))))...))))).....)))). ( -15.40)
>DroSec_CAF1 871 92 + 1
GAACAAAA-CCU-UUGACUAUAAGUAUCUCAUACAUUACAUUUAGGUGUUUUCACUUUUAGCUAGUUAUCUAGCUAUUUGUAACCGUUAUAGUG
........-...-...(((((((((((...)))).(((((...(((((....))))).(((((((....)))))))..)))))...))))))). ( -19.40)
>DroSim_CAF1 873 92 + 1
GAACAAAA-CCU-UUGAAUAUAAGUAUCUCAUACAUUACAUUUAGGUGUUUUCACUUUUAGCUAGUUAUCUAGCUAUUUUUAACCGUUAUUGUG
.(((((((-(.(-((((((.(((((((...)))).))).))))))).)))))......(((((((....))))))).........)))...... ( -15.90)
>DroEre_CAF1 921 93 + 1
AGAUUAAAACCU-UCCAACAUAAUUAUGUUAUAACUUACAUUUGUGUACCUUAACAUUCAGCUAGUCAUCUGGCUAUUAGUAACCGUUAUUGUA
............-...(((((....)))))(((((((((....((((......))))..((((((....))))))....))))..))))).... ( -13.10)
>consensus
AAACAAAA_CCU_UUGAAUAUAAGUAUCUCAUACAUUACAUUUAGGUGUUUUCACUUUUAGCUAGUUAUCUAGCUAUUUGUAACCGUUAUUGUG
.(((.......................................(((((....))))).(((((((....))))))).........)))...... (-10.73 =  -9.97 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:44 2006