Locus 6887

Sequence ID 3R_DroMel_CAF1
Location 18,196,391 – 18,196,502
Length 111
Max. P 0.506099
window11181

overview

Window 1

Location 18,196,391 – 18,196,502
Length 111
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 71.04
Mean single sequence MFE -20.83
Consensus MFE -9.69
Energy contribution -9.12
Covariance contribution -0.56
Combinations/Pair 1.20
Mean z-score -1.88
Structure conservation index 0.47
SVM decision value -0.05
SVM RNA-class probability 0.506099
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18196391 111 + 27905053
UUGGCAAUCAGCGUGUUGAUUU-CUAAAAAUA---AAGAAUCAAUUCGCGCUGUUUAUAAAUAUGAAGAGAAAUGAAAACAAACAGAAUUAAGUAUA----GUUUUCAUUUUGCAGCCC
..(((...(((((((((((((.-((.......---.))))))))..)))))))..............(..((((((((((..((........))...----))))))))))..).))). ( -28.70)
>DroSec_CAF1 4487 91 + 1
UUGGCAAUCAGCGUGUUGAUGU-CU-----------------------CGCUGUUUAUAAAUAUGAAGAGAAAUGAAAACAAACAGAAAUAAGUAUA----GUAUUCAUUUUGCAGCCC
..(((...(((((.(.......-).-----------------------)))))..............(..(((((((.((..((........))...----)).)))))))..).))). ( -17.50)
>DroSim_CAF1 4541 91 + 1
UUGGCAAUCAGCGUGUUGAUGU-CU-----------------------CGCUGUUUAUAAAUAUGAAGAGAAAUGAAAACAAACAGAAAUAAGUAUA----GUAUUCAUUUUGCAGCCC
..(((...(((((.(.......-).-----------------------)))))..............(..(((((((.((..((........))...----)).)))))))..).))). ( -17.50)
>DroYak_CAF1 4597 107 + 1
UUGGUAAUUAGCGUGCUGAUUUCCUAAAAACAGCAAAGUAUUAAUUCGCACUGUUUAUAAAUAUGAACAGAAAUCGAAAUAAACU------------UAUACAACUUAUUUUUCAGCCC
..(((........(((((.(((....))).)))))((((.(((.((((..((((((((....))))))))....)))).))))))------------).................))). ( -19.60)
>consensus
UUGGCAAUCAGCGUGUUGAUGU_CU_______________________CGCUGUUUAUAAAUAUGAAGAGAAAUGAAAACAAACAGAAAUAAGUAUA____GUAUUCAUUUUGCAGCCC
..(((.(((((....)))))..............................((.(((((....))))).)).............................................))). ( -9.69 =  -9.12 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:31 2006