Locus 5478

Sequence ID	X_DroMel_CAF1
Location	14,241,449 – 14,241,549
Length	100
Max. P	0.985756

overview

Window 8

Location	14,241,449 – 14,241,549
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	98.20
Mean single sequence MFE	-26.55
Consensus MFE	-26.21
Energy contribution	-26.01
Covariance contribution	-0.20
Combinations/Pair	1.08
Mean z-score	-1.68
Structure conservation index	0.99
SVM decision value	2.02
SVM RNA-class probability	0.985756
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14241449 100 + 22224390
AUAAAAACAAUUGCGCGCAUUGCGCUUCCAUUUGUGAAGUGGGCAAAAUUAUUCAGGGAGCUGCGACAGAAUCGCAAAAAUUUUAAUUGUCGCAUGCCCU
..........((((((((...))))..(((((.....)))))))))........((((...((((((((.................))))))))..)))) ( -27.13)
>DroSec_CAF1 149703 100 + 1
AUAAAAACAAUUGCGCGCAUUGCGCUUCCAUUUGUGAAGUGGGCAAAAUUAUUCAGGGAGCUGCGACAGAAUCGCAAAAAUUUUAAUUGUCGCAUGCCCU
..........((((((((...))))..(((((.....)))))))))........((((...((((((((.................))))))))..)))) ( -27.13)
>DroSim_CAF1 130412 100 + 1
AUAAAAACAAUUGCGCGCAUUGCGCUUCCAUUUGUGAAGUGGGCAAAAUUAUUCAGGGAGCUGCGACAGAAUCGCAAAAAUUUUAAUUGUCGCAUGCCCU
..........((((((((...))))..(((((.....)))))))))........((((...((((((((.................))))))))..)))) ( -27.13)
>DroEre_CAF1 137304 100 + 1
AUAAAAACAAUUGCGCGCAUUGCGCUUCCAUUUGUGAAGUGGGCAAAAUUAUUCAGCGAGCUGCGACAGAAUCGCAAAAAUUUUAAUUGUCGCAUGCCGC
..........((((((((...))))..(((((.....))))))))).........(((.((((((((((.................)))))))).))))) ( -27.73)
>DroYak_CAF1 141413 100 + 1
AUAAAAACAAUUGCGCGCAAUGCGCUUCCAUUUGUGAAGUGGGCAAAAUUAUUCAGGGAGCUGCGACAGAAUCGCAAAAAUUUUAAUUGUCGCAUGCCGU
..........((((((((...))))..(((((.....)))))))))..........((...((((((((.................))))))))..)).. ( -23.63)
>consensus
AUAAAAACAAUUGCGCGCAUUGCGCUUCCAUUUGUGAAGUGGGCAAAAUUAUUCAGGGAGCUGCGACAGAAUCGCAAAAAUUUUAAUUGUCGCAUGCCCU
..........((((((((...))))..(((((.....))))))))).........(((.((((((((((.................)))))))).))))) (-26.21 = -26.01 +  -0.20)

alignment

secondary structure

dotplot

Window 9

Location	14,241,449 – 14,241,549
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	98.20
Mean single sequence MFE	-24.99
Consensus MFE	-23.11
Energy contribution	-23.51
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.48
Structure conservation index	0.92
SVM decision value	0.83
SVM RNA-class probability	0.861273
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14241449 100 - 22224390
AGGGCAUGCGACAAUUAAAAUUUUUGCGAUUCUGUCGCAGCUCCCUGAAUAAUUUUGCCCACUUCACAAAUGGAAGCGCAAUGCGCGCAAUUGUUUUUAU
((((..(((((((...................)))))))...))))(((((((..((((((.........)))..((((...)))))))))))))).... ( -25.41)
>DroSec_CAF1 149703 100 - 1
AGGGCAUGCGACAAUUAAAAUUUUUGCGAUUCUGUCGCAGCUCCCUGAAUAAUUUUGCCCACUUCACAAAUGGAAGCGCAAUGCGCGCAAUUGUUUUUAU
((((..(((((((...................)))))))...))))(((((((..((((((.........)))..((((...)))))))))))))).... ( -25.41)
>DroSim_CAF1 130412 100 - 1
AGGGCAUGCGACAAUUAAAAUUUUUGCGAUUCUGUCGCAGCUCCCUGAAUAAUUUUGCCCACUUCACAAAUGGAAGCGCAAUGCGCGCAAUUGUUUUUAU
((((..(((((((...................)))))))...))))(((((((..((((((.........)))..((((...)))))))))))))).... ( -25.41)
>DroEre_CAF1 137304 100 - 1
GCGGCAUGCGACAAUUAAAAUUUUUGCGAUUCUGUCGCAGCUCGCUGAAUAAUUUUGCCCACUUCACAAAUGGAAGCGCAAUGCGCGCAAUUGUUUUUAU
(((((.(((((((...................))))))))).))).(((((((..((((((.........)))..((((...)))))))))))))).... ( -26.61)
>DroYak_CAF1 141413 100 - 1
ACGGCAUGCGACAAUUAAAAUUUUUGCGAUUCUGUCGCAGCUCCCUGAAUAAUUUUGCCCACUUCACAAAUGGAAGCGCAUUGCGCGCAAUUGUUUUUAU
..(((.(((((((...................))))))))))....(((((((..((((((.........)))..((((...)))))))))))))).... ( -22.11)
>consensus
AGGGCAUGCGACAAUUAAAAUUUUUGCGAUUCUGUCGCAGCUCCCUGAAUAAUUUUGCCCACUUCACAAAUGGAAGCGCAAUGCGCGCAAUUGUUUUUAU
.((((.(((((((...................)))))))))))...(((((((..((((((.........)))..((((...)))))))))))))).... (-23.11 = -23.51 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:56 2006