Locus 4488

Sequence ID 3R_DroMel_CAF1
Location 11,889,514 – 11,889,610
Length 96
Max. P 0.677412
window7340

overview

Window 0

Location 11,889,514 – 11,889,610
Length 96
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 78.11
Mean single sequence MFE -25.22
Consensus MFE -16.50
Energy contribution -16.67
Covariance contribution 0.17
Combinations/Pair 1.26
Mean z-score -1.38
Structure conservation index 0.65
SVM decision value 0.30
SVM RNA-class probability 0.677412
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11889514 96 - 27905053
CAUCCAGCCGUUGGUCUUCAGCAGCAAAGAUGGACUAUCCAAGCGCUACAAUCUGCGCAAGGUGAGCUCGGCC---------AUAUG-----CAUAUCUCUAUUAUAUAA
......((...(((((...(((.((.....(((.....))).((((........))))...))..))).))))---------)...)-----)................. ( -22.60)
>DroSec_CAF1 45639 96 - 1
CAUCCAGCCGUUGGUCUUCAGCAGCAAGGAUGGACUCUCCAAACGCUACAAUCUGCGCAAGGUAAGCUGGUCU---------AUAUA-----CAUAGCUCUAUUAUAUAA
...(((((.((((.....)))).((..(..(((.....)))..)((........)))).......)))))..(---------(((((-----.(((....))))))))). ( -20.60)
>DroSim_CAF1 46324 95 - 1
CAUCCAGCCGUUGGUCUUCAGCAGCAAAGAUGGACUCUCCAAACGCUACAAUCUGCGCAAGGUAAGCUGGUUC---------AUAUA-----CGUA-CUCUAUUAUAUAA
...(((((.(((.(((((........))))).)))...((...(((........)))...))...)))))...---------.....-----....-............. ( -19.00)
>DroEre_CAF1 46462 96 - 1
CAUUCAGCCGUUGGUCUUCAGCAGCAAGGAUGGGCUCUCUAAGCGCUACAAUCUGCGCAAGGUGAGCUGGGCA---------AUAUA-----GAUAUCUAUAUUAUAUUA
(((((.((.((((.....)))).))..)))))(((((.((..((((........))))..)).)))))....(---------(((((-----(....)))))))...... ( -30.10)
>DroYak_CAF1 46924 103 - 1
CAUUCAGCCGUUGGUCUUCAGCAGCAAGGAUGGACUCUCUAAGCGCUACAAUCUGCGCAAGGUGAGCUGGGCAGGGUA----AUAUA---CUAAUACCCAUAUCAUAUUA
..((((((.(((.(((((........))))).)))((.((..((((........))))..)).))))))))..(((((----.....---....)))))........... ( -27.50)
>DroMoj_CAF1 55203 104 - 1
UAUACAACCGCUGGUCUUCACCAGCAAGGAUGGUCUCUCCAAGCGCUACAAUUUGCGCAAGGUAAGUAAAGAG-AAUGAGCUACUCAAUA--CCAAUCC---UUGCUUAA
.........((((((....))))))(((((((((((((((..((((........))))..)).......))))-).((((...))))...--)).))))---))...... ( -31.51)
>consensus
CAUCCAGCCGUUGGUCUUCAGCAGCAAGGAUGGACUCUCCAAGCGCUACAAUCUGCGCAAGGUAAGCUGGGCA_________AUAUA_____CAUAUCUCUAUUAUAUAA
...(((((.(((.(((((........))))).)))...((..((((........))))..))...)))))........................................ (-16.50 = -16.67 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:39 2006