Locus 5828

Sequence ID	X_DroMel_CAF1
Location	15,076,043 – 15,076,157
Length	114
Max. P	0.999952

overview

Window 6

Location	15,076,043 – 15,076,157
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	97.54
Mean single sequence MFE	-29.52
Consensus MFE	-28.50
Energy contribution	-28.54
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-3.40
Structure conservation index	0.97
SVM decision value	4.80
SVM RNA-class probability	0.999952
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15076043 114 + 22224390
UUAUCAAUGGUAAUUUCUCGUGUCAGCUUUGAAAUAAUUUCAGUUGACGGAAACGAGACUAUUCAAGUGUGACCAAAUGCACACAAAAAUUAUGCCACAAUUACCAUUUUGUUC
.....((((((((((((((..(((((((..(((.....))))))))))(....)))))........(((((........)))))..............))))))))))...... ( -29.80)
>DroSec_CAF1 37261 114 + 1
UUAUCAAUGGUAAUUUCUCGUGUCAGCUUUGAAAUAAUUUCAGUUGACGGAAACGAGACUAUUCAAGUGUGACCAAAUGCACACAAAAAUUAUACCACAAUUACCAUUUUGUUC
.....((((((((((((((..(((((((..(((.....))))))))))(....)))))........(((((........)))))..............))))))))))...... ( -29.80)
>DroSim_CAF1 23203 114 + 1
UUAUCAAUGGUAAUUUCUCGUGUCAGCUUUGAAAUAAUUUCAGUUGACGGAAACGAGACUAUUCAAGUGUGACCAAAUGCACACAAAAAUUAUGCCACAAUUACCAUUUUGUUC
.....((((((((((((((..(((((((..(((.....))))))))))(....)))))........(((((........)))))..............))))))))))...... ( -29.80)
>DroEre_CAF1 28194 114 + 1
UUAUCAAUGGUAAUUUCUCGUGUCAGCUUUGAAAUAAUUUCAGUUGACGGAAGCGAGACUAUUCAAGUGUGUCCAAAUGCACACAAAAAUUAUGCCACAAUUAGCAUUUUGUUC
.......(((((...(((((((((((((..(((.....))))))))))....))))))........((((((......))))))........)))))................. ( -27.30)
>DroYak_CAF1 30178 114 + 1
UUAUCAAUGGUAAUUUCUCGUGUCAGCUUUGAAAUAAUUUCAGUUGACGGAAACGAGACUAUUCAAGUGUGAUCAAAUGCACACAAAAAUUAUGCCACAAUUACCAUUCGGUUC
..(((((((((((((((((..(((((((..(((.....))))))))))(....)))))........(((((........)))))..............)))))))))).))).. ( -30.90)
>consensus
UUAUCAAUGGUAAUUUCUCGUGUCAGCUUUGAAAUAAUUUCAGUUGACGGAAACGAGACUAUUCAAGUGUGACCAAAUGCACACAAAAAUUAUGCCACAAUUACCAUUUUGUUC
.....(((((((((((((((((((((((..(((.....))))))))))....))))))........(((((........)))))..............))))))))))...... (-28.50 = -28.54 +   0.04)

alignment

secondary structure

dotplot

Window 7

Location	15,076,043 – 15,076,157
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	97.54
Mean single sequence MFE	-26.70
Consensus MFE	-25.90
Energy contribution	-26.30
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.88
Structure conservation index	0.97
SVM decision value	2.71
SVM RNA-class probability	0.996502
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15076043 114 - 22224390
GAACAAAAUGGUAAUUGUGGCAUAAUUUUUGUGUGCAUUUGGUCACACUUGAAUAGUCUCGUUUCCGUCAACUGAAAUUAUUUCAAAGCUGACACGAGAAAUUACCAUUGAUAA
......((((((((((........((((..((((((.....).)))))..))))..((((((.((.((....((((.....))))..)).)).))))))))))))))))..... ( -28.20)
>DroSec_CAF1 37261 114 - 1
GAACAAAAUGGUAAUUGUGGUAUAAUUUUUGUGUGCAUUUGGUCACACUUGAAUAGUCUCGUUUCCGUCAACUGAAAUUAUUUCAAAGCUGACACGAGAAAUUACCAUUGAUAA
......((((((((((........((((..((((((.....).)))))..))))..((((((.((.((....((((.....))))..)).)).))))))))))))))))..... ( -28.20)
>DroSim_CAF1 23203 114 - 1
GAACAAAAUGGUAAUUGUGGCAUAAUUUUUGUGUGCAUUUGGUCACACUUGAAUAGUCUCGUUUCCGUCAACUGAAAUUAUUUCAAAGCUGACACGAGAAAUUACCAUUGAUAA
......((((((((((........((((..((((((.....).)))))..))))..((((((.((.((....((((.....))))..)).)).))))))))))))))))..... ( -28.20)
>DroEre_CAF1 28194 114 - 1
GAACAAAAUGCUAAUUGUGGCAUAAUUUUUGUGUGCAUUUGGACACACUUGAAUAGUCUCGCUUCCGUCAACUGAAAUUAUUUCAAAGCUGACACGAGAAAUUACCAUUGAUAA
...(((.((((((....)))))).((((..(((((........)))))..))))..(((((..((.((....((((.....))))..)).))..)))))........))).... ( -21.10)
>DroYak_CAF1 30178 114 - 1
GAACCGAAUGGUAAUUGUGGCAUAAUUUUUGUGUGCAUUUGAUCACACUUGAAUAGUCUCGUUUCCGUCAACUGAAAUUAUUUCAAAGCUGACACGAGAAAUUACCAUUGAUAA
......((((((((((........((((..(((((........)))))..))))..((((((.((.((....((((.....))))..)).)).))))))))))))))))..... ( -27.80)
>consensus
GAACAAAAUGGUAAUUGUGGCAUAAUUUUUGUGUGCAUUUGGUCACACUUGAAUAGUCUCGUUUCCGUCAACUGAAAUUAUUUCAAAGCUGACACGAGAAAUUACCAUUGAUAA
......((((((((((........((((..(((((........)))))..))))..((((((.((.((....((((.....))))..)).)).))))))))))))))))..... (-25.90 = -26.30 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:20 2006