Locus 6774

Sequence ID	3R_DroMel_CAF1
Location	17,867,558 – 17,867,648
Length	90
Max. P	0.997621

overview

Window 0

Location	17,867,558 – 17,867,648
Length	90
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	74.25
Mean single sequence MFE	-30.50
Consensus MFE	-15.70
Energy contribution	-17.50
Covariance contribution	1.80
Combinations/Pair	1.20
Mean z-score	-3.02
Structure conservation index	0.51
SVM decision value	2.90
SVM RNA-class probability	0.997621
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17867558 90 + 27905053
AACGCUGAUGG--GUGAUCUCGCAUGCUGGCAGUAGGGUGCGAGAGAGCCAAGUCAGAGAGAAACUGACGUCACAAG-AUGGGUAUUGGCGUA
.((((..((((--((..((((((((.(((....))).))))))))..)))..(((((.......)))))........-.....)))..)))). ( -37.90)
>DroSec_CAF1 9209 91 + 1
AACGCUGAUGG--GUGAUCUCGCAUGCUAGCAGUAGGGUGCGAGAGAGCCAAGUCAGAGAGAAAUUGACGUCAAAAAGUUUGAUAUUGGGGUA
.((.(..((.(--((..((((((((.(((....))).))))))))..)))..(((((.......)))))(((((.....)))))))..).)). ( -31.70)
>DroSim_CAF1 10746 91 + 1
AACGCUGAUUG--GUGAUCUCGCAUGCUGGCGGUAGGGUGCGAGAGAGCCAAGUCAGAGAGAAACUGACGUCACAAGGUUGGAUAUUGGGAUA
..(.(((((((--((..((((((((.(((....))).))))))))..))).)))))).).....(..(..((.((....))))..)..).... ( -32.80)
>DroEre_CAF1 9834 89 + 1
AACCCUUGUG---GUGAUCUCGCAUGCUGACAGUAGGGUGCGAGAGAGCCAAGUCGGAGACAAGCUGACGUCACAAAG-UUAAUAAUGGUGUA
.(((.(((((---((..((((((((.(((....))).))))))))..)))..(((((.......))))).........-...)))).)))... ( -31.50)
>DroYak_CAF1 9926 91 + 1
AACGCUAGUGG--GUGAUCUCGCAUGCGGGCAGUAGGGUGCGAGAGAGCCCAGUCGGAGAGAGCCUGACGUCACAAUAUUUAUUUUUGGAGUA
.((.(((((((--((..((((((((.(........).))))))))..)))))(((((.......)))))................)))).)). ( -32.80)
>DroPer_CAF1 11419 85 + 1
AAAGAGGGUGCGACUGAUAUUCGAA----ACUGUA----GCGAGAGAGCCACACAAGAGAGCAAGUGACGUCACAAAUGACACUUUCGUGCGG
.....(((((.......)))))...----.(((((----.((((((.....(((..........)))..((((....)))).))))))))))) ( -16.30)
>consensus
AACGCUGAUGG__GUGAUCUCGCAUGCUGGCAGUAGGGUGCGAGAGAGCCAAGUCAGAGAGAAACUGACGUCACAAAGUUUAAUAUUGGGGUA
.............((((((((((((.(((....))).)))))))).......(((((.......))))).))))................... (-15.70 = -17.50 +   1.80)

alignment

secondary structure

dotplot

Window 1

Location	17,867,558 – 17,867,648
Length	90
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	74.25
Mean single sequence MFE	-20.58
Consensus MFE	-9.40
Energy contribution	-10.50
Covariance contribution	1.10
Combinations/Pair	1.20
Mean z-score	-1.92
Structure conservation index	0.46
SVM decision value	0.41
SVM RNA-class probability	0.726943
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17867558 90 - 27905053
UACGCCAAUACCCAU-CUUGUGACGUCAGUUUCUCUCUGACUUGGCUCUCUCGCACCCUACUGCCAGCAUGCGAGAUCAC--CCAUCAGCGUU
.((((..........-........(((((.......))))).(((...(((((((..((......))..)))))))....--)))...)))). ( -22.60)
>DroSec_CAF1 9209 91 - 1
UACCCCAAUAUCAAACUUUUUGACGUCAAUUUCUCUCUGACUUGGCUCUCUCGCACCCUACUGCUAGCAUGCGAGAUCAC--CCAUCAGCGUU
..........((((.....))))...........(.((((..(((...(((((((..(((....)))..)))))))....--))))))).).. ( -17.10)
>DroSim_CAF1 10746 91 - 1
UAUCCCAAUAUCCAACCUUGUGACGUCAGUUUCUCUCUGACUUGGCUCUCUCGCACCCUACCGCCAGCAUGCGAGAUCAC--CAAUCAGCGUU
....................(((.(((((.......)))))((((...(((((((..((......))..)))))))...)--))))))..... ( -20.60)
>DroEre_CAF1 9834 89 - 1
UACACCAUUAUUAA-CUUUGUGACGUCAGCUUGUCUCCGACUUGGCUCUCUCGCACCCUACUGUCAGCAUGCGAGAUCAC---CACAAGGGUU
..............-(((((((..(((((.(((....))).)))))..(((((((..((......))..)))))))....---)))))))... ( -23.60)
>DroYak_CAF1 9926 91 - 1
UACUCCAAAAAUAAAUAUUGUGACGUCAGGCUCUCUCCGACUGGGCUCUCUCGCACCCUACUGCCCGCAUGCGAGAUCAC--CCACUAGCGUU
.....................((((..((..((.....)).((((...(((((((..(........)..)))))))...)--)))))..)))) ( -19.30)
>DroPer_CAF1 11419 85 - 1
CCGCACGAAAGUGUCAUUUGUGACGUCACUUGCUCUCUUGUGUGGCUCUCUCGC----UACAGU----UUCGAAUAUCAGUCGCACCCUCUUU
..((((....))))....((((((.......((......))(((((......))----)))...----...........))))))........ ( -20.30)
>consensus
UACCCCAAUAUCAAACUUUGUGACGUCAGUUUCUCUCUGACUUGGCUCUCUCGCACCCUACUGCCAGCAUGCGAGAUCAC__CCACCAGCGUU
...................((((.(((((.((......)).)))))..(((((((..((......))..)))))))))))............. ( -9.40 = -10.50 +   1.10)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:39 2006