Locus 3161

Sequence ID 2R_DroMel_CAF1
Location 10,798,845 – 10,798,939
Length 94
Max. P 0.904732
window5207

overview

Window 7

Location 10,798,845 – 10,798,939
Length 94
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 77.57
Mean single sequence MFE -18.41
Consensus MFE -9.98
Energy contribution -11.22
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -2.36
Structure conservation index 0.54
SVM decision value 1.04
SVM RNA-class probability 0.904732
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10798845 94 - 20766785
A--------GCCAAACUUUAUGAAA-------------CACAAUAAUUAAAACUUGUUUAUUUCUUUGCGAGUAGGUUCAAAGUUGAACAU--GUGUAAUCUAAAUAAACAAAUUAA
.--------................-------------...............((((((((((..(((((.....(((((....)))))..--.)))))...))))))))))..... ( -14.90)
>DroSec_CAF1 6344 94 - 1
A--------GCCAAACUUUAUUAAA-------------CACAAUAAUUAAAACUUGUUUAUUUCUCUGCGCGUAAGUUCAAAGUUGAACAC--GUGUACGCUAAAUAAACAAAUUAA
.--------................-------------...............((((((((((..((((((((..(((((....)))))))--))))).)..))))))))))..... ( -19.30)
>DroSim_CAF1 6452 94 - 1
A--------GCCAAACUUUAUUAAA-------------CACAAUAAUUAAAACUUGUUUAUUUCUCUGCGCGUAAGUUCAAAGUUGAACAC--GUGUACGCUAAAUAAACAAAUUAA
.--------................-------------...............((((((((((..((((((((..(((((....)))))))--))))).)..))))))))))..... ( -19.30)
>DroYak_CAF1 6586 117 - 1
GUAUAAGCGGUCUAACUAUAUUCAAAAUCCGCUAUAUACUUAUUAACUGAAACUUGUUUAUUUCCCUGCCAGUAAGUUCAAAGUUAAUCAGGUGUGUAAGCCAAAUAAACAAAUUUA
......((((..................))))((((((((((((((((..((((((................))))))...))))))).)))))))))................... ( -20.16)
>consensus
A________GCCAAACUUUAUUAAA_____________CACAAUAAUUAAAACUUGUUUAUUUCUCUGCGAGUAAGUUCAAAGUUGAACAC__GUGUAAGCUAAAUAAACAAAUUAA
.....................................................((((((((((...(((((....(((((....)))))....)))))....))))))))))..... ( -9.98 = -11.22 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:57 2006