Locus 7269

Sequence ID 3R_DroMel_CAF1
Location 19,196,842 – 19,196,945
Length 103
Max. P 0.520729
window11764

overview

Window 4

Location 19,196,842 – 19,196,945
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.88
Mean single sequence MFE -22.60
Consensus MFE -14.72
Energy contribution -15.08
Covariance contribution 0.36
Combinations/Pair 1.07
Mean z-score -1.68
Structure conservation index 0.65
SVM decision value -0.03
SVM RNA-class probability 0.520729
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19196842 103 - 27905053
UCGCUU------------CACCGGCCAGUGAUAUGAAUCACCAUAAAUCUAAGAGCGGUAUAAAUGUUUAUCGCAAUUUUAUAAUCAUCC--CCAGCC-A--GACCAGGCCAAAACCGAA
......------------....((((.(((((....))))).............((((((........))))))................--......-.--.....))))......... ( -20.40)
>DroSim_CAF1 9192 107 - 1
CCGCUU------------CACCGGCCAGUGAUAUGAAUCACCAUAAAUCUAAGAGCGGUAUAAAUGUUUAUCGCAAUUUUAUAAUCAUCCCCCCAGCC-AGAGACCAGGCCAAAACCGAA
......------------....((((.(((((....))))).............((((((........))))))........................-........))))......... ( -20.40)
>DroEre_CAF1 10146 103 - 1
CCACUU------------GGCCGGCUGGUGAUAUGAAUCACCAUAAAUCUAAGAGCGGUAUAAAUGUUUAUCGCAAUUUUAUAAUCAUCC--CCAGCC-A--GACCUGGACAAACCCGAC
(((.((------------(((.((.(((((((....)))))))...........((((((........))))))................--)).)))-)--)...)))........... ( -26.50)
>DroYak_CAF1 13042 100 - 1
----UA------------CAACGGCUAGUGAUAUGAAUCACCAUAAAUCUAAGAGCGGUAUAAAUGUUUAUCGCUAUUUUAUAAUCAUCC--CCAGUCCA--ACUCUGGCCAAAAGCGAC
----..------------....((((((.(.((((......))))........(((((((........)))))))...............--........--.).))))))......... ( -20.60)
>DroAna_CAF1 14697 115 - 1
CCUCUUUCUGUCUUCCACCACCGACUGGCGAUAUGAAUCACCAUAAAUCUAAGAGCGGUAUAAAUAUUUAUCGCAAUUUUAUAAUCAUCC--CCGGCC-A--GACCAGGCCAAGACUGAC
......((.(((((........((.(((.(((....))).)))...........((((((........))))))..........))....--..((((-.--.....))))))))).)). ( -25.10)
>consensus
CCGCUU____________CACCGGCUAGUGAUAUGAAUCACCAUAAAUCUAAGAGCGGUAUAAAUGUUUAUCGCAAUUUUAUAAUCAUCC__CCAGCC_A__GACCAGGCCAAAACCGAC
......................((((.(((((....))))).............((((((........)))))).................................))))......... (-14.72 = -15.08 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:45 2006