Locus 1815

Sequence ID 3R_DroMel_CAF1
Location 5,192,913 – 5,193,008
Length 95
Max. P 0.577007
window2989

overview

Window 9

Location 5,192,913 – 5,193,008
Length 95
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 75.11
Mean single sequence MFE -16.75
Consensus MFE -10.02
Energy contribution -10.22
Covariance contribution 0.20
Combinations/Pair 1.08
Mean z-score -1.36
Structure conservation index 0.60
SVM decision value 0.09
SVM RNA-class probability 0.577007
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5192913 95 - 27905053
GGUGGUGUCUAUGUUUCCUCCACACAGAAGCACCACAACUCUAUCAUAAAAAAAAAACAAAGAAAUGUUUAGAAAUUAUAGUUAAGUAA--ACUGAA
.(((((((...(((.........)))...))))))).(((..((.((((.....(((((......))))).....)))).))..)))..--...... ( -15.20)
>DroVir_CAF1 644 86 - 1
UGUGGUAUCUAUAUUACCACCGCAGAGCAGCACCACAACUCUGCGG-----A---AAUCA--AAUCAGAUAUUAAUCAUUAUGAAGAAGC-UAUGGA
.(((((.(((.........((((((((...........))))))))-----.---.....--.....(((....))).......))).))-)))... ( -20.30)
>DroSec_CAF1 809 91 - 1
GGUGGUGUCUAUGUUUCCUCCACACAGAAGCACCACAACUCUAUCAUAAAA----AACAAAGAAAUGUUUAGAACUUAUAGUGAAGUAA--ACUGAA
.(((((((...(((.........)))...))))))).......(((....(----((((......)))))...((((......))))..--..))). ( -14.90)
>DroSim_CAF1 809 93 - 1
GGUGGUGUCUAUGUUUCCUCCACAGAGAAGCACCACAACUCUAUCAUAAAA----AACAAACAAAUGUUUAGAACUUAUAGUGACGUACUCACUGAA
.(((((((((.(((.......))).))..)))))))..............(----((((......)))))........((((((.....)))))).. ( -18.20)
>DroEre_CAF1 853 92 - 1
GGUGGUGUCUAUGUUUCCUCCACACAGAAGCACCACAACUCUAAGAGAAAA---AGACAACGAAAUAUUUAGAAAUUAUACUGAAGGCU--AGUUAA
.(((((((...(((.........)))...)))))))..(((...)))....---....(((......(((((........)))))....--.))).. ( -15.00)
>DroYak_CAF1 820 85 - 1
GGUGGUGUCUAUGUUUCCUCCACAGAGAAGCACCACAACUCUAAAACAAGA----------GACAUUUUUAGAAAUUAUAGUGAAAUAU--AAUGAA
.(((((((((.(((.......))).))..)))))))..((((......)))----------)............((((((......)))--)))... ( -16.90)
>consensus
GGUGGUGUCUAUGUUUCCUCCACACAGAAGCACCACAACUCUAUCAUAAAA____AACAAAGAAAUGUUUAGAAAUUAUAGUGAAGUAA__ACUGAA
.(((((((((.(((.......))).))..)))))))............................................................. (-10.02 = -10.22 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:13 2006