Locus 3866

Sequence ID	3L_DroMel_CAF1
Location	11,189,817 – 11,189,927
Length	110
Max. P	0.999226

overview

Window 6

Location	11,189,817 – 11,189,927
Length	110
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	97.64
Mean single sequence MFE	-22.12
Consensus MFE	-21.80
Energy contribution	-21.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.75
Structure conservation index	0.99
SVM decision value	2.39
SVM RNA-class probability	0.993393
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11189817 110 + 23771897
GAUAAAGAAAAGUUCAUUAUCACAUGCCAGAAGAACAGCGGAAAAUAAAGCCGUUGAACAAGUGA-AAAACGAAAGGGAAAUGCAAGUGAAAAGUCCAAUUGGACCCUGCC
...................((((.(((........((((((.........)))))).........-....(....)......))).))))...((((....))))...... ( -21.80)
>DroSec_CAF1 8988 110 + 1
GAUAAAGAAAAGUUCAUUAUCACAUGCCAGAAGAACAGCGGAAUAUAAAGCCGUUGAACAAGUGA-AAAACGAAAGGGAAAUGCAAGUGAAAAGUCCAAUUGGACCCUGCC
...................((((.(((........((((((.........)))))).........-....(....)......))).))))...((((....))))...... ( -21.80)
>DroSim_CAF1 8947 110 + 1
GAUAAAGAAAAGUUCAUUAUCACAUGCCAGAAGAACAGCGGAAUAUAAAGCCGUUGAACAAGUGA-AAAACGAAAGGGAAAUGCAAGUGAAAAGUCCAAUUGGACCCUGCC
...................((((.(((........((((((.........)))))).........-....(....)......))).))))...((((....))))...... ( -21.80)
>DroEre_CAF1 9180 110 + 1
GAUAAAGAAAAGUUCAUUAUCACAUGCCAGAAGAACAGCGGAAAAUAAAGCCGUUGAACAAGUGA-AAAACGAAAGGGAAAUGCAAGUGAAAAGUCCAUUUGGACCCUGCC
...................((((.(((........((((((.........)))))).........-....(....)......))).))))...((((....))))...... ( -21.80)
>DroYak_CAF1 9385 111 + 1
GAUAAAGAAAAGUUCAUUAUCACAUGCCACAAGAACAGCGGAAAAUAAAGCCGUUGAAUAAGUGACGAAACGAAAGGGAAAUGCAAGUGAAAAGUCCAAUUGGACCCUGCC
...................((((.((((((.....((((((.........)))))).....)))......(....)......))).))))...((((....))))...... ( -23.40)
>consensus
GAUAAAGAAAAGUUCAUUAUCACAUGCCAGAAGAACAGCGGAAAAUAAAGCCGUUGAACAAGUGA_AAAACGAAAGGGAAAUGCAAGUGAAAAGUCCAAUUGGACCCUGCC
...................((((.(((........((((((.........))))))..............(....)......))).))))...((((....))))...... (-21.80 = -21.80 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	11,189,817 – 11,189,927
Length	110
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	97.64
Mean single sequence MFE	-23.96
Consensus MFE	-23.04
Energy contribution	-23.24
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.22
Structure conservation index	0.96
SVM decision value	3.45
SVM RNA-class probability	0.999226
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11189817 110 - 23771897
GGCAGGGUCCAAUUGGACUUUUCACUUGCAUUUCCCUUUCGUUUU-UCACUUGUUCAACGGCUUUAUUUUCCGCUGUUCUUCUGGCAUGUGAUAAUGAACUUUUCUUUAUC
.(((((((((....))))......)))))........((((((..-((((.((((.((((((..........)))))).....)))).)))).))))))............ ( -24.30)
>DroSec_CAF1 8988 110 - 1
GGCAGGGUCCAAUUGGACUUUUCACUUGCAUUUCCCUUUCGUUUU-UCACUUGUUCAACGGCUUUAUAUUCCGCUGUUCUUCUGGCAUGUGAUAAUGAACUUUUCUUUAUC
.(((((((((....))))......)))))........((((((..-((((.((((.((((((..........)))))).....)))).)))).))))))............ ( -24.30)
>DroSim_CAF1 8947 110 - 1
GGCAGGGUCCAAUUGGACUUUUCACUUGCAUUUCCCUUUCGUUUU-UCACUUGUUCAACGGCUUUAUAUUCCGCUGUUCUUCUGGCAUGUGAUAAUGAACUUUUCUUUAUC
.(((((((((....))))......)))))........((((((..-((((.((((.((((((..........)))))).....)))).)))).))))))............ ( -24.30)
>DroEre_CAF1 9180 110 - 1
GGCAGGGUCCAAAUGGACUUUUCACUUGCAUUUCCCUUUCGUUUU-UCACUUGUUCAACGGCUUUAUUUUCCGCUGUUCUUCUGGCAUGUGAUAAUGAACUUUUCUUUAUC
.(((((((((....))))......)))))........((((((..-((((.((((.((((((..........)))))).....)))).)))).))))))............ ( -24.30)
>DroYak_CAF1 9385 111 - 1
GGCAGGGUCCAAUUGGACUUUUCACUUGCAUUUCCCUUUCGUUUCGUCACUUAUUCAACGGCUUUAUUUUCCGCUGUUCUUGUGGCAUGUGAUAAUGAACUUUUCUUUAUC
.(((((((((....))))......)))))................(((((......((((((..........))))))...)))))....(((((.((.....)).))))) ( -22.60)
>consensus
GGCAGGGUCCAAUUGGACUUUUCACUUGCAUUUCCCUUUCGUUUU_UCACUUGUUCAACGGCUUUAUUUUCCGCUGUUCUUCUGGCAUGUGAUAAUGAACUUUUCUUUAUC
.(((((((((....))))......)))))........((((((...((((.((((.((((((..........)))))).....)))).)))).))))))............ (-23.04 = -23.24 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:40 2006