Locus 688

Sequence ID	X_DroMel_CAF1
Location	1,908,494 – 1,908,653
Length	159
Max. P	0.893390

overview

Window 1

Location	1,908,494 – 1,908,613
Length	119
Sequences	3
Columns	119
Reading direction	reverse
Mean pairwise identity	99.44
Mean single sequence MFE	-29.97
Consensus MFE	-29.54
Energy contribution	-29.54
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.02
Structure conservation index	0.99
SVM decision value	0.98
SVM RNA-class probability	0.893390
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1908494 119 - 22224390
GGUAAUUUGCGUGUGGAAUGGGCGCUUUGUUUACAUUGUUCCUAUUCGGUGUUGUUUCUUAACCGCCCUUCCCGCCCCAUUCCGCCCCAAUCCACUCGACUCUUUCGCUCUUUCGUCGA
((....(((.(.((((((((((.((..((....))............(((((((.....))).))))......)))))))))))).)))).))..(((((..............))))) ( -30.84)
>DroSec_CAF1 3921 119 - 1
GGUAAUUUGCCUGUGGAAUGGGCGCUUUGUUUACAUUGUUCCUAUUCGGUGUUGUUUCUUAACCGCCCUUCCCGCCCCAUUCCGCCCCAAUCCACUCGACUCUUUCGCUCUUUCGUCGA
((....(((...((((((((((.((..((....))............(((((((.....))).))))......))))))))))))..))).))..(((((..............))))) ( -29.54)
>DroSim_CAF1 4184 119 - 1
GGUAAUUUGCCUGUGGAAUGGGCGCUUUGUUUACAUUGUUCCUAUUCGGUGUUGUUUCUUAACCGCCCUUCCCGCCCCAUUCCGCCCCAAUCCACUCGACUCUUUCGCUCUUUCGUCGA
((....(((...((((((((((.((..((....))............(((((((.....))).))))......))))))))))))..))).))..(((((..............))))) ( -29.54)
>consensus
GGUAAUUUGCCUGUGGAAUGGGCGCUUUGUUUACAUUGUUCCUAUUCGGUGUUGUUUCUUAACCGCCCUUCCCGCCCCAUUCCGCCCCAAUCCACUCGACUCUUUCGCUCUUUCGUCGA
((....(((...((((((((((.((..((....))............(((((((.....))).))))......))))))))))))..))).))..(((((..............))))) (-29.54 = -29.54 +  -0.00)

alignment

secondary structure

dotplot

Window 2

Location	1,908,534 – 1,908,653
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	99.33
Mean single sequence MFE	-28.10
Consensus MFE	-23.92
Energy contribution	-23.92
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.81
Structure conservation index	0.85
SVM decision value	0.33
SVM RNA-class probability	0.692233
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1908534 119 + 22224390
UGG-GGCGGGAAGGGCGGUUAAGAAACAACACCGAAUAGGAACAAUGUAAACAAAGCGCCCAUUCCACACGCAAAUUACCAAAUUACCCGAUGAUGAAGUCAAUUGUUGUAUACAAUAAA
.((-(((((((((((((.((...........((.....)).....((....)))).))))).))))...))).((((....)))).)))(((......)))..((((((....)))))). ( -28.10)
>DroSec_CAF1 3961 119 + 1
UGG-GGCGGGAAGGGCGGUUAAGAAACAACACCGAAUAGGAACAAUGUAAACAAAGCGCCCAUUCCACAGGCAAAUUACCAAAUUACCCGAUGAUGAAGUCAAUUGUUGUAUACAAUAAA
.((-((.((((.(((((.((...........((.....)).....((....)))).))))).)))).).((.......))......)))(((......)))..((((((....)))))). ( -28.10)
>DroSim_CAF1 4224 119 + 1
UGG-GGCGGGAAGGGCGGUUAAGAAACAACACCGAAUAGGAACAAUGUAAACAAAGCGCCCAUUCCACAGGCAAAUUACCAAAUUACCCGAUGAUGAAGUCAAUUGUUGUAUACAAUAAA
.((-((.((((.(((((.((...........((.....)).....((....)))).))))).)))).).((.......))......)))(((......)))..((((((....)))))). ( -28.10)
>DroEre_CAF1 1869 119 + 1
UGG-GGCGGGAAGGGCGGUUAAGAAACAACACCGAAUAGGAACAAUGUAAACAAAGCGCCCAUUCCACAGGCAAAUUACCAAAUUACCCGAUGAUGAAGUCAAUUGUUGUAUACAAUAAA
.((-((.((((.(((((.((...........((.....)).....((....)))).))))).)))).).((.......))......)))(((......)))..((((((....)))))). ( -28.10)
>DroYak_CAF1 4552 120 + 1
UGGGGGCGGGAAGGGCGGUUAAGAAACAACACCGAAUAGGAACAAUGUAAACAAAGCGCCCAUUCCACAGGCAAAUUACCAAAUUACCCGAUGAUGAAGUCAAUUGUUGUAUACAAUAAA
..((((.((((.(((((.((...........((.....)).....((....)))).))))).)))).).((.......))......)))(((......)))..((((((....)))))). ( -28.10)
>consensus
UGG_GGCGGGAAGGGCGGUUAAGAAACAACACCGAAUAGGAACAAUGUAAACAAAGCGCCCAUUCCACAGGCAAAUUACCAAAUUACCCGAUGAUGAAGUCAAUUGUUGUAUACAAUAAA
(((..((.(((((((((.((...........((.....)).....((....)))).))))).))))....))......)))........(((......)))..((((((....)))))). (-23.92 = -23.92 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:09 2006