Locus 863

Sequence ID	X_DroMel_CAF1
Location	2,443,463 – 2,443,615
Length	152
Max. P	0.888542

overview

Window 2

Location	2,443,463 – 2,443,575
Length	112
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	93.33
Mean single sequence MFE	-35.73
Consensus MFE	-29.62
Energy contribution	-32.40
Covariance contribution	2.78
Combinations/Pair	1.04
Mean z-score	-2.00
Structure conservation index	0.83
SVM decision value	-0.01
SVM RNA-class probability	0.527361
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2443463 112 + 22224390
CAAGUGCCUGAAGACGUAUACGGGUCACAAGAAUGAGAAGUACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCAC--------AUUUAGGCUUUA
.....(((((((..((....)).((((.((((((((...(.....)..(((((((..(((((((....)))))))...))))))))))).)))).)).))--------.))))))).... ( -35.10)
>DroSec_CAF1 4374 120 + 1
CAAGUGCCUGAAGACGUAUACGGGUCACAAGAACGAGAAGUACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCACACUAAAACAUUGAGGCUUUA
.....((((.(((((........)))............(((..((((((((((((..(((((((....)))))))...))))))).........))))).)))......)).)))).... ( -34.00)
>DroSim_CAF1 6527 120 + 1
CAAGUGCCUGAAGACGUAUACGGGUCACAAGAACGAGAAGUACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUGUGCACACUAAAACAUUGAGGCUUUG
((((.((((.((..((....)).(((((((((((.....)).......(((((((..(((((((....)))))))...))))))).....))))))).)).........)).)))))))) ( -38.10)
>consensus
CAAGUGCCUGAAGACGUAUACGGGUCACAAGAACGAGAAGUACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCACACUAAAACAUUGAGGCUUUA
.....((((.(((((........))).................((((((((((((..(((((((....)))))))...))))))).........)))))..........)).)))).... (-29.62 = -32.40 +   2.78)

alignment

secondary structure

dotplot

Window 3

Location	2,443,503 – 2,443,615
Length	112
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	92.78
Mean single sequence MFE	-41.63
Consensus MFE	-35.52
Energy contribution	-38.63
Covariance contribution	3.11
Combinations/Pair	1.03
Mean z-score	-2.68
Structure conservation index	0.85
SVM decision value	0.95
SVM RNA-class probability	0.888542
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2443503 112 + 22224390
UACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCAC--------AUUUAGGCUUUAACUCACAAGCGUCCAUUGUAGUGGAUCGUGAGUGGCAGCG
...((((((((((((..(((((((....)))))))...))))))).........))))).--------......(((...((((((....((((((....)))))).))))))...))). ( -40.70)
>DroSec_CAF1 4414 120 + 1
UACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCACACUAAAACAUUGAGGCUUUAACUCACAAGCGUCCAUUGCAGUGGAUCGUGAGUGGCAGCG
....((..(((((((..(((((((....)))))))...)))))))..........(((.((((.......((((.......))))...((((((((....))))).))).))))))))). ( -41.70)
>DroSim_CAF1 6567 120 + 1
UACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUGUGCACACUAAAACAUUGAGGCUUUGACUCACAAGCGUCGAUUGCAGUGGAUCGUGAGUGGCAGCG
..((((..(((((((..(((((((....)))))))...)))))))((((((((..((((.........(((((.((((........)))).)))))))))..)))).))))...)))).. ( -42.50)
>consensus
UACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCACACUAAAACAUUGAGGCUUUAACUCACAAGCGUCCAUUGCAGUGGAUCGUGAGUGGCAGCG
...((((((((((((..(((((((....)))))))...))))))).........)))))...............(((...((((((....((((((....)))))).))))))...))). (-35.52 = -38.63 +   3.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:36 2006