Locus 740

Sequence ID	X_DroMel_CAF1
Location	2,006,305 – 2,006,495
Length	190
Max. P	0.869589

overview

Window 8

Location	2,006,305 – 2,006,421
Length	116
Sequences	4
Columns	116
Reading direction	forward
Mean pairwise identity	95.69
Mean single sequence MFE	-16.43
Consensus MFE	-15.37
Energy contribution	-15.62
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-1.85
Structure conservation index	0.94
SVM decision value	0.86
SVM RNA-class probability	0.869589
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2006305 116 + 22224390
UCAGUGUUAGUUUUAUAAGUAGAGUUUCUUUAGCUUACGUUUAGGCAAUAAAAUAACUUUAUUUCCCACAUCUAAUCUAGAAUUUUCCUCUCUAACUCUCUCUUUACACAUGUCUA
..((.(((((......((((((((((..(((((((((....)))))..))))..))))))))))......((((...))))..........))))).))................. ( -16.20)
>DroSec_CAF1 7127 116 + 1
UCAGUGUUAGUUUUAUAAGUAGAGUUUCUUUAGCUUACGUUUAGGCAAUAAAAUAACUUUAUUUCCCUCAUCUAAUCUAGAAUUUUCCUCUCUAUCUCUCUCUUUACACAUGUCUA
...(((((((......((((((((((..(((((((((....)))))..))))..)))))))))).......)))...((((.........))))...........))))....... ( -15.62)
>DroSim_CAF1 6033 116 + 1
UCAGUGUUAGUUUUAUAAGUAGAGUUUCUUUAGCUUACGUUUAGGCAAUAAAAUAACUUUAUUUCCCUCAUCUAAUCUAGAAUUUUCCUCUCUAUCUCUCUCUUUACACAUGUCUA
...(((((((......((((((((((..(((((((((....)))))..))))..)))))))))).......)))...((((.........))))...........))))....... ( -15.62)
>DroEre_CAF1 7155 116 + 1
UCAGUGUUAGUUUUAUAAGUAGAGUUUCUUUAGCUUACAUUUAGGCAAUAAAAUAACUUUAUUCUCCUCAUCUAAUCUAGAGUUUCUUUCUCUAUCUCUCUCUUUACACUUGUCUA
..((((((((.......(((((((((..(((((((((....)))))..))))..)))))))))........)))...(((((.......)))))...........)))))...... ( -18.26)
>consensus
UCAGUGUUAGUUUUAUAAGUAGAGUUUCUUUAGCUUACGUUUAGGCAAUAAAAUAACUUUAUUUCCCUCAUCUAAUCUAGAAUUUUCCUCUCUAUCUCUCUCUUUACACAUGUCUA
...(((((((......((((((((((..(((((((((....)))))..))))..)))))))))).......)))...((((.........))))...........))))....... (-15.37 = -15.62 +   0.25)

alignment

secondary structure

dotplot

Window 9

Location	2,006,385 – 2,006,495
Length	110
Sequences	4
Columns	110
Reading direction	reverse
Mean pairwise identity	95.45
Mean single sequence MFE	-22.08
Consensus MFE	-20.61
Energy contribution	-20.30
Covariance contribution	-0.31
Combinations/Pair	1.11
Mean z-score	-1.41
Structure conservation index	0.93
SVM decision value	-0.01
SVM RNA-class probability	0.530193
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2006385 110 - 22224390
AUUAAACCUUUUUUUUAUUGAUUGUAAAACAAGCGCUCUUAGCAAAAACGCUGCAGCAGAAAGAGCGAGAGCGAUAGACAUGUGUAAAGAGAGAGUUAGAGAGGAAAAUU
....(((.((((((((((....(((........((((((((((......)))...((.......)))))))))....)))...)))))))))).)))............. ( -22.30)
>DroSec_CAF1 7207 110 - 1
AUUAAACCUUUUUUUUAUUGAUUGUAAAACAAGCGCUCUUAGCAAAAACGCUGCAGCAGAAAGAGCGAGAGCGAUAGACAUGUGUAAAGAGAGAGAUAGAGAGGAAAAUU
......(((((((....((..((.....(((..((((((((((......)))...((.......))))))))).......))).....))..))...)))))))...... ( -21.20)
>DroSim_CAF1 6113 110 - 1
AUUAAACCUUUUUUUUAUUGAUUGUAAAACAAGCGCUCUUAGCAAAAACGCUGCAGCAGAAAGAGCGAGAGCGAUAGACAUGUGUAAAGAGAGAGAUAGAGAGGAAAAUU
......(((((((....((..((.....(((..((((((((((......)))...((.......))))))))).......))).....))..))...)))))))...... ( -21.20)
>DroEre_CAF1 7235 109 - 1
AUUAAA-CUUUUUUUUAUUCAUUGUAAAACAAGCGCUCUUAGCAAAAACGCUGCAGCUGGAAGAGCGAGAGCGAUAGACAAGUGUAAAGAGAGAGAUAGAGAAAGAAACU
......-(((((((((.....((((........((((((((((......)))...(((.....))))))))))....)))).....)))))))))............... ( -23.60)
>consensus
AUUAAACCUUUUUUUUAUUGAUUGUAAAACAAGCGCUCUUAGCAAAAACGCUGCAGCAGAAAGAGCGAGAGCGAUAGACAUGUGUAAAGAGAGAGAUAGAGAGGAAAAUU
........(((((((((((..((.....(((..((((((((((......)))...((.......))))))))).........))).....))..)))))))))))..... (-20.61 = -20.30 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:38 2006