Locus 5175

Sequence ID 2R_DroMel_CAF1
Location 16,837,876 – 16,837,990
Length 114
Max. P 0.669857
window8276

overview

Window 6

Location 16,837,876 – 16,837,990
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 83.80
Mean single sequence MFE -27.12
Consensus MFE -21.38
Energy contribution -20.58
Covariance contribution -0.80
Combinations/Pair 1.43
Mean z-score -1.81
Structure conservation index 0.79
SVM decision value 0.29
SVM RNA-class probability 0.669857
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16837876 114 + 20766785
ACAUUGAAUUUACCUACAUGUGAAGACAAUUUGUUAGUUUGCUAUAUGAAAGAGAUGUGACUUAUCCAUGCAAUUAGUGCCGUAAAAGGUUGAUUGCAUUGAAAUCGCAUUUUA
................((((((.((((.........))))..))))))...(((((((((....((.(((((((((..(((......)))))))))))).))..))))))))). ( -27.20)
>DroSec_CAF1 6809 114 + 1
ACAUCGAAUUUAACUACAUGUGAAAACAAUUUGUUAGUUUGCUAUAGGAAAGAGAUGAGACUUAUCCGUGCAAUUAGUGCCGUAAAAGGUUGAUUGCAUUGAAAUCGCAUUUUA
....((((((.(((....(((....)))....)))))))))..........((((((.((....((.(((((((((..(((......)))))))))))).))..)).)))))). ( -24.40)
>DroSim_CAF1 6020 114 + 1
ACAUCGAAUUUAACUACAUGUGAAAACAAUUUGUUAGUUUGCUAUAGGAAAGAGAUGAGACUUAUCCGUGCAAUUAGUGCCGUAAAAGGUUGAUUGCAUUGAAAUCGCAUUUUA
....((((((.(((....(((....)))....)))))))))..........((((((.((....((.(((((((((..(((......)))))))))))).))..)).)))))). ( -24.40)
>DroEre_CAF1 7443 114 + 1
ACAUUGAAAUUAACUACAUGUGAAGACAAUUUGUUAGUUUGCUAUAUUAAAGAGAUGCGUCUUAUCCACGCAAUUACUUCCGUAUCAGGAUGAUUGCGUUGAAAUCGCAUUUUA
......((((((((....(((....)))....))))))))...........((((((((.....((.(((((((((..(((......)))))))))))).))...)))))))). ( -29.70)
>DroYak_CAF1 6004 114 + 1
ACAUUGAAACAAACUACAUGUGAAUACAAUUUGUUAGUUUGCUAUAAUAAAGAGAUGCGUCUUAUCCAUGCAAUUAGUGCCGAAAAAGGUUGAUUGCAAUGAAAUCGCAUUUUA
.........(((((((((..((....))...)).)))))))..........((((((((..((((...((((((((..(((......)))))))))))))))...)))))))). ( -26.90)
>DroAna_CAF1 6187 111 + 1
ACACAGAAAU---CCACUUGUGAUUACAAUUUGUUAGUUUGCCAGAGCAAGGGGAUGCGGUUUAUCCAUGUAGUCUAAGCCCUGCCUGGGGGAUUGCAUUGAAAACGUAUCUUA
.(((((....---....)))))...............(((((....)))))((((((((.(((.((.(((((((((...(((.....)))))))))))).))))))))))))). ( -30.10)
>consensus
ACAUUGAAAUUAACUACAUGUGAAAACAAUUUGUUAGUUUGCUAUAGGAAAGAGAUGCGACUUAUCCAUGCAAUUAGUGCCGUAAAAGGUUGAUUGCAUUGAAAUCGCAUUUUA
...................(..(((((.....)))..))..).........((((((((.....((.(((((((((..(((......)))))))))))).))...)))))))). (-21.38 = -20.58 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:26 2006