Locus 6199

Sequence ID	3R_DroMel_CAF1
Location	16,191,337 – 16,191,456
Length	119
Max. P	0.956527

overview

Window 5

Location	16,191,337 – 16,191,456
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	99.33
Mean single sequence MFE	-31.27
Consensus MFE	-29.98
Energy contribution	-30.18
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.25
Structure conservation index	0.96
SVM decision value	0.02
SVM RNA-class probability	0.545986
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16191337 119 + 27905053
AAUAAGUCGCUGCCUUGGCGACAGGAAGCCAAUUUAUGUGCUUUGUGUGCAUUUUUGUUUGAGUUUGCUAUAUUU-UUAUUGGCAGCACAAUUUAUUCACGAAUAUGGUGGCACCAGCCA
.....((((((.....)))))).....(((((((..((.......(((((((((......)))).(((((.....-....)))))))))).......))..))).))))(((....))). ( -31.44)
>DroSec_CAF1 20617 120 + 1
AAUAAGUCGCUGCCUUGGCGACAGGAAGCCAAUUUAUGUGCUUUGUGUGCAUUUUUGUUUGAGUUUGCUAUAUUUUUUAUUGGCAGCACAAUUUAUUCACGAAUAUGGUGGCACCAGCCA
.....((((((.....)))))).....(((((((..((.......(((((((((......)))).(((((..........)))))))))).......))..))).))))(((....))). ( -31.34)
>DroSim_CAF1 14137 120 + 1
AAUAAGUCGCUGCCUUGGCGACAGGAAGCCAAUUUAUGUGCUUUGUGUGCAUUUUUGUUUGAGUUUGCUAUAUUUUUUAUUGGCAGCACAAUUUAUUCACGAAUAUGGUGGCACCAGCCA
.....((((((.....)))))).....(((((((..((.......(((((((((......)))).(((((..........)))))))))).......))..))).))))(((....))). ( -31.34)
>DroEre_CAF1 19911 120 + 1
AAUAAGUCGCUGCCUUGGCGACAGGAAGCCAAUUUAUGUGCUUUGUGUGCAUUUUUGUUUGAGUUUGCUAUAUUUUUUAUUGGCAGCACAAUUUAUUCACGAAUAUGGUGGCACCAGCCA
.....((((((.....)))))).....(((((((..((.......(((((((((......)))).(((((..........)))))))))).......))..))).))))(((....))). ( -31.34)
>DroYak_CAF1 21281 120 + 1
AAUAAGUCGCUGCCUUGGCGACAGGAAGGCAAUUUAUGUGCUUUGUGUGCAUUUUUGUUUGAGUUUGCUAUAUUUUUUAUUGGCAGCACAAUUUAUUCACGAAUAUGGUGGCACCAGCCA
.....((.((((((.((((((.....((((((...(((..(.....)..)))..))))))....))))))...........))))))))...................((((....)))) ( -30.90)
>consensus
AAUAAGUCGCUGCCUUGGCGACAGGAAGCCAAUUUAUGUGCUUUGUGUGCAUUUUUGUUUGAGUUUGCUAUAUUUUUUAUUGGCAGCACAAUUUAUUCACGAAUAUGGUGGCACCAGCCA
.....((((((.....)))))).....(((((((..((.......(((((((((......)))).(((((..........)))))))))).......))..))).))))(((....))). (-29.98 = -30.18 +   0.20)

alignment

secondary structure

dotplot

Window 6

Location	16,191,337 – 16,191,456
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	99.33
Mean single sequence MFE	-25.47
Consensus MFE	-24.96
Energy contribution	-25.16
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.66
Structure conservation index	0.98
SVM decision value	1.47
SVM RNA-class probability	0.956527
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16191337 119 - 27905053
UGGCUGGUGCCACCAUAUUCGUGAAUAAAUUGUGCUGCCAAUAA-AAAUAUAGCAAACUCAAACAAAAAUGCACACAAAGCACAUAAAUUGGCUUCCUGUCGCCAAGGCAGCGACUUAUU
((((....))))...........(((((....(((((((.....-........................(((.......)))......(((((........))))))))))))..))))) ( -26.50)
>DroSec_CAF1 20617 120 - 1
UGGCUGGUGCCACCAUAUUCGUGAAUAAAUUGUGCUGCCAAUAAAAAAUAUAGCAAACUCAAACAAAAAUGCACACAAAGCACAUAAAUUGGCUUCCUGUCGCCAAGGCAGCGACUUAUU
((((....))))...........(((((....(((((((..............................(((.......)))......(((((........))))))))))))..))))) ( -26.50)
>DroSim_CAF1 14137 120 - 1
UGGCUGGUGCCACCAUAUUCGUGAAUAAAUUGUGCUGCCAAUAAAAAAUAUAGCAAACUCAAACAAAAAUGCACACAAAGCACAUAAAUUGGCUUCCUGUCGCCAAGGCAGCGACUUAUU
((((....))))...........(((((....(((((((..............................(((.......)))......(((((........))))))))))))..))))) ( -26.50)
>DroEre_CAF1 19911 120 - 1
UGGCUGGUGCCACCAUAUUCGUGAAUAAAUUGUGCUGCCAAUAAAAAAUAUAGCAAACUCAAACAAAAAUGCACACAAAGCACAUAAAUUGGCUUCCUGUCGCCAAGGCAGCGACUUAUU
((((....))))...........(((((....(((((((..............................(((.......)))......(((((........))))))))))))..))))) ( -26.50)
>DroYak_CAF1 21281 120 - 1
UGGCUGGUGCCACCAUAUUCGUGAAUAAAUUGUGCUGCCAAUAAAAAAUAUAGCAAACUCAAACAAAAAUGCACACAAAGCACAUAAAUUGCCUUCCUGUCGCCAAGGCAGCGACUUAUU
.(((..(((((((.......)))......(((((.(((................................)))))))).)))).......))).(((((((.....))))).))...... ( -21.35)
>consensus
UGGCUGGUGCCACCAUAUUCGUGAAUAAAUUGUGCUGCCAAUAAAAAAUAUAGCAAACUCAAACAAAAAUGCACACAAAGCACAUAAAUUGGCUUCCUGUCGCCAAGGCAGCGACUUAUU
((((....))))...........(((((....(((((((..............................(((.......)))......(((((........))))))))))))..))))) (-24.96 = -25.16 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:16 2006