Locus 1637

Sequence ID	2R_DroMel_CAF1
Location	6,183,851 – 6,183,949
Length	98
Max. P	0.968893

overview

Window 0

Location	6,183,851 – 6,183,949
Length	98
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	94.48
Mean single sequence MFE	-25.64
Consensus MFE	-21.10
Energy contribution	-21.26
Covariance contribution	0.16
Combinations/Pair	1.05
Mean z-score	-1.67
Structure conservation index	0.82
SVM decision value	0.74
SVM RNA-class probability	0.838964
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6183851 98 + 20766785
AAAAAAUGCAUAAAAAUGACUUAUAAAACAUUUGCGAGCGUGCGAACGGCAAGUCGCUGGAGGAAAAAAGGUGGCGGCACAUUGAGGGCCACCGCAUC
.....((((..........(((........((((((....))))))((((.....))))))).......((((((..(.....)...)))))))))). ( -24.30)
>DroSec_CAF1 14965 98 + 1
AAAAAAUGCAUAAAAAUGACUUAUAAAACAUUUGUGAGCGUGCGAACGGCAAGUCGCUGGAGGAAAAAAGGUGGCGGCACAUUGAGGGCCACCGCAUC
.....((((......(((.(((((((.....)))))))))).....((((.....))))..........((((((..(.....)...)))))))))). ( -24.60)
>DroSim_CAF1 15000 98 + 1
AAAAAAUGCAUAAAAAUGACUUAUAAAACAUUUGUGAGCGUGCGAACGGCAAGUCGCUGGAGGAAAAAAGGUGGCGGCACAUUGAGGGCCACCGCAUC
.....((((......(((.(((((((.....)))))))))).....((((.....))))..........((((((..(.....)...)))))))))). ( -24.60)
>DroEre_CAF1 17860 96 + 1
AAAAAAUGCAUAAAAAUUACUUAUAAAACAUUUGUGAGCGUGCGAACGGCACCUCGCUGGUGGAA--GAGGUGCCGGCACAUCGAGGGCCACCGCAUC
.....((((..........(((((((.....))))))).((((...(((((((((..........--))))))))))))).....((....)))))). ( -32.20)
>DroYak_CAF1 15247 96 + 1
AAAAAAUGCAUAAAAAUGACUUAUAAAACAUUUGCGAGCGUGCGAACGGAAAGUCGCUGGAGGAG--AAGGUGGCGGCACAUUGAGGGCCACCGCAUC
.....((((........(((((......(.((((((....)))))).)..)))))..........--..((((((..(.....)...)))))))))). ( -22.50)
>consensus
AAAAAAUGCAUAAAAAUGACUUAUAAAACAUUUGUGAGCGUGCGAACGGCAAGUCGCUGGAGGAAAAAAGGUGGCGGCACAUUGAGGGCCACCGCAUC
.....((((.....................((..(.(((((((.....)))...)))).)..)).....((((((..(.....)...)))))))))). (-21.10 = -21.26 +   0.16)

alignment

secondary structure

dotplot

Window 1

Location	6,183,851 – 6,183,949
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	94.48
Mean single sequence MFE	-24.46
Consensus MFE	-20.86
Energy contribution	-21.06
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.86
Structure conservation index	0.85
SVM decision value	1.63
SVM RNA-class probability	0.968893
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6183851 98 - 20766785
GAUGCGGUGGCCCUCAAUGUGCCGCCACCUUUUUUCCUCCAGCGACUUGCCGUUCGCACGCUCGCAAAUGUUUUAUAAGUCAUUUUUAUGCAUUUUUU
(((((((((((.(.....).))))))...............(((((.(((.....))).).))))........................))))).... ( -24.60)
>DroSec_CAF1 14965 98 - 1
GAUGCGGUGGCCCUCAAUGUGCCGCCACCUUUUUUCCUCCAGCGACUUGCCGUUCGCACGCUCACAAAUGUUUUAUAAGUCAUUUUUAUGCAUUUUUU
((.((((((((.(.....).))))))...............((((........))))..))))..((((((...(((((.....)))))))))))... ( -22.30)
>DroSim_CAF1 15000 98 - 1
GAUGCGGUGGCCCUCAAUGUGCCGCCACCUUUUUUCCUCCAGCGACUUGCCGUUCGCACGCUCACAAAUGUUUUAUAAGUCAUUUUUAUGCAUUUUUU
((.((((((((.(.....).))))))...............((((........))))..))))..((((((...(((((.....)))))))))))... ( -22.30)
>DroEre_CAF1 17860 96 - 1
GAUGCGGUGGCCCUCGAUGUGCCGGCACCUC--UUCCACCAGCGAGGUGCCGUUCGCACGCUCACAAAUGUUUUAUAAGUAAUUUUUAUGCAUUUUUU
(((((.(((((.......(((((((((((((--..........)))))))))...)))))).))).........(((((.....)))))))))).... ( -29.31)
>DroYak_CAF1 15247 96 - 1
GAUGCGGUGGCCCUCAAUGUGCCGCCACCUU--CUCCUCCAGCGACUUUCCGUUCGCACGCUCGCAAAUGUUUUAUAAGUCAUUUUUAUGCAUUUUUU
(((((((((((.(.....).)))))).....--..........(((((..((((.((......)).))))......)))))........))))).... ( -23.80)
>consensus
GAUGCGGUGGCCCUCAAUGUGCCGCCACCUUUUUUCCUCCAGCGACUUGCCGUUCGCACGCUCACAAAUGUUUUAUAAGUCAUUUUUAUGCAUUUUUU
((.((((((((.(.....).))))))...............((((........))))..))))..((((((...(((((.....)))))))))))... (-20.86 = -21.06 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:28 2006