Locus 7261

Sequence ID	3R_DroMel_CAF1
Location	19,190,648 – 19,190,762
Length	114
Max. P	0.999834

overview

Window 0

Location	19,190,648 – 19,190,762
Length	114
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	97.54
Mean single sequence MFE	-27.38
Consensus MFE	-23.57
Energy contribution	-24.40
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.16
Structure conservation index	0.86
SVM decision value	1.31
SVM RNA-class probability	0.940729
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19190648 114 + 27905053
UCGGCCAGUUGGCCAUAAAAGCAUUUUAAUUUCUUAAUUUACCACAAACUAUAAAUCAUGGCCUUAGGUGUUUUGGCCAUAUAAUGUAAGCCACCUUGCAGUGGCAUUCGCAUU
..((((....))))......((...................................((((((...........)))))).........(((((......)))))....))... ( -28.50)
>DroSec_CAF1 2774 114 + 1
UCGGCCUGUUGGCCAUAAAAGCAUUUUAAUUUCUUAAUUUACCACAAACUAUAAAUCAUGGCCUUAGGUGUUUUGGCCAUAUAAUGUAAGCCACCUUGCAGUGGCAUUCGCAUU
..((((....))))......((...................................((((((...........)))))).........(((((......)))))....))... ( -28.70)
>DroSim_CAF1 2790 114 + 1
UCGGCCAGUUGGCCAUAAAAGCAUUUUAAUUUCUUAAUUUACCACAAACUAUAAAUCAUGGCCUUAGGUGUUUUGGCCAUAUAAUGUAAGCCACCUUGCAGUGGCAUUCGCAUU
..((((....))))......((...................................((((((...........)))))).........(((((......)))))....))... ( -28.50)
>DroEre_CAF1 4006 114 + 1
UCGGCCAGUUGCCCAUAAAAGCAUUUUAAUUUCUUAAUUUACCACAAACUAUAAAUCAUGGCCUUAGGUGUUUUGGCCAUAUAAUGUAAGCCACCUUGCAGUGGCAUUCGCAUU
..((((((.(((........)))................((((.....((((.....)))).....))))..))))))....((((((((((((......))))).)).))))) ( -24.10)
>DroYak_CAF1 6543 114 + 1
UUGGCCAGUUGGCCAUAAAAGCAUUUUAAUUUCUUAAUUUACCACAAACUAUAAAUCAUGGCCUUAGGUGUUUUGGCCAUAUAAUGUAAGCCACCUUGCAGUGGCAUUCGCAUU
.(((((....))))).....((...................................((((((...........)))))).........(((((......)))))....))... ( -28.90)
>DroAna_CAF1 9262 114 + 1
UUGGCGAGUUGUCCAUAAAAUCAUUUUAAUUUCUUAAUUUACCACAACCUAUAAAUCAUGGCCUUAGGUGUUUUGGCCAUAUAAUGUAAGCCACCUUGCAAUGGCAUUCGCAUU
...((((((.(.((((.........................................((((((...........))))))....((((((....)))))))))))))))))... ( -25.60)
>consensus
UCGGCCAGUUGGCCAUAAAAGCAUUUUAAUUUCUUAAUUUACCACAAACUAUAAAUCAUGGCCUUAGGUGUUUUGGCCAUAUAAUGUAAGCCACCUUGCAGUGGCAUUCGCAUU
..((((....))))......((...................................((((((...........)))))).........(((((......)))))....))... (-23.57 = -24.40 +   0.83)

alignment

secondary structure

dotplot

Window 1

Location	19,190,648 – 19,190,762
Length	114
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	97.54
Mean single sequence MFE	-32.67
Consensus MFE	-30.03
Energy contribution	-30.50
Covariance contribution	0.47
Combinations/Pair	1.06
Mean z-score	-3.16
Structure conservation index	0.92
SVM decision value	4.20
SVM RNA-class probability	0.999834
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19190648 114 - 27905053
AAUGCGAAUGCCACUGCAAGGUGGCUUACAUUAUAUGGCCAAAACACCUAAGGCCAUGAUUUAUAGUUUGUGGUAAAUUAAGAAAUUAAAAUGCUUUUAUGGCCAACUGGCCGA
...((((((((((((....))))))........(((((((...........))))))).......))))))((((..((((....))))..))))....(((((....))))). ( -34.40)
>DroSec_CAF1 2774 114 - 1
AAUGCGAAUGCCACUGCAAGGUGGCUUACAUUAUAUGGCCAAAACACCUAAGGCCAUGAUUUAUAGUUUGUGGUAAAUUAAGAAAUUAAAAUGCUUUUAUGGCCAACAGGCCGA
...((((((((((((....))))))........(((((((...........))))))).......))))))((((..((((....))))..))))....(((((....))))). ( -34.10)
>DroSim_CAF1 2790 114 - 1
AAUGCGAAUGCCACUGCAAGGUGGCUUACAUUAUAUGGCCAAAACACCUAAGGCCAUGAUUUAUAGUUUGUGGUAAAUUAAGAAAUUAAAAUGCUUUUAUGGCCAACUGGCCGA
...((((((((((((....))))))........(((((((...........))))))).......))))))((((..((((....))))..))))....(((((....))))). ( -34.40)
>DroEre_CAF1 4006 114 - 1
AAUGCGAAUGCCACUGCAAGGUGGCUUACAUUAUAUGGCCAAAACACCUAAGGCCAUGAUUUAUAGUUUGUGGUAAAUUAAGAAAUUAAAAUGCUUUUAUGGGCAACUGGCCGA
...((((((((((((....))))))........(((((((...........))))))).......))))))(((...((((....))))..(((((....)))))....))).. ( -31.60)
>DroYak_CAF1 6543 114 - 1
AAUGCGAAUGCCACUGCAAGGUGGCUUACAUUAUAUGGCCAAAACACCUAAGGCCAUGAUUUAUAGUUUGUGGUAAAUUAAGAAAUUAAAAUGCUUUUAUGGCCAACUGGCCAA
...((((((((((((....))))))........(((((((...........))))))).......))))))((((..((((....))))..))))....(((((....))))). ( -35.10)
>DroAna_CAF1 9262 114 - 1
AAUGCGAAUGCCAUUGCAAGGUGGCUUACAUUAUAUGGCCAAAACACCUAAGGCCAUGAUUUAUAGGUUGUGGUAAAUUAAGAAAUUAAAAUGAUUUUAUGGACAACUCGCCAA
...((((..((((((....))))))........(((((((...........)))))))........(((((.(((((((((....))))......))))).).))))))))... ( -26.40)
>consensus
AAUGCGAAUGCCACUGCAAGGUGGCUUACAUUAUAUGGCCAAAACACCUAAGGCCAUGAUUUAUAGUUUGUGGUAAAUUAAGAAAUUAAAAUGCUUUUAUGGCCAACUGGCCGA
...((((((((((((....))))))........(((((((...........))))))).......))))))((((..((((....))))..))))....(((((....))))). (-30.03 = -30.50 +   0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:33 2006