Locus 566

Sequence ID 3L_DroMel_CAF1
Location 1,628,457 – 1,628,553
Length 96
Max. P 0.500000
window865

overview

Window 5

Location 1,628,457 – 1,628,553
Length 96
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 77.71
Mean single sequence MFE -29.25
Consensus MFE -16.85
Energy contribution -16.80
Covariance contribution -0.05
Combinations/Pair 1.07
Mean z-score -1.49
Structure conservation index 0.58
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1628457 96 + 23771897
CUCGCCGACUUCGACUCGAAGUUGGUCAGCAUGGUGGCACUUUUU-CUGUUCUGCCUGUA--------GGUGUCUCAAAUUGGAUGCACUUCUAGGUGUCGGCUU
...((((((...(((..((((..(((((......)))).)..)))-).)))..(((((.(--------(((((.((......)).)))))).))))))))))).. ( -31.50)
>DroVir_CAF1 3742 91 + 1
CGAGCCGACUUCGACUCGAAAUUGGUCAACAUGUUGGCAAAGUCUUUUGUUUUUCCUGCUGCCGUGGCGAUGUCUCA-GUUGU-------------AGUCGGCUU
.(((((((((.(((((.((.((..(((..((((..((((.................))))..))))..))))).)))-)))).-------------))))))))) ( -30.73)
>DroSec_CAF1 3730 96 + 1
CUCGCCGACUUCGACUCGAAGUUGGUCAGCAUGGUGGCACUUUUU-CUGUUCUGCCUGUA--------GGUGUCUCAAAUUGGAUGCUCUUCUAGGUGUCGGCUU
...((((((.....((.((((.......(((.((..(.((.....-..)).)..))))).--------(((((((......))))))))))).))..)))))).. ( -28.80)
>DroSim_CAF1 3083 96 + 1
CUCGCUGACUUCGACUCGAAGUUGGUCAGCAUGGUGGCACUUUUU-CUGUUCUGCCUGUA--------GGUGUCUCAAAUUGGAUGCUCUUCUAGGUGUCGGCUU
...((((((.....((.((((.......(((.((..(.((.....-..)).)..))))).--------(((((((......))))))))))).))..)))))).. ( -26.60)
>DroYak_CAF1 3729 96 + 1
CUCGCCGACUUCGACUCGAAGUUGGUCAGCAUGCUGGCACUUUUU-CUGUUCUGCCUGUA--------GGUGUCUCAAAUUGGUUGCUGUUCUACGUGUCGGCUU
((.((((((((((...)))))))))).))...((((((((.....-..(.....)..(((--------((.((..(......)..))...))))))))))))).. ( -28.80)
>DroAna_CAF1 3730 92 + 1
CGCGCUGACUUCGACUCGAAGUUGGUCAGCAUGUUGGCACUUUUU-CCA--CGAUCGUUU--------CGUGUCUCAAUUA--CUUUUCCUGUGGGUGUCGGCUU
...((((((..((((.....))))))))))..(((((((((....-.((--(((.....)--------)))).......((--(.......)))))))))))).. ( -29.10)
>consensus
CUCGCCGACUUCGACUCGAAGUUGGUCAGCAUGGUGGCACUUUUU_CUGUUCUGCCUGUA________GGUGUCUCAAAUUGGAUGCUCUUCUAGGUGUCGGCUU
...((((((...((((.......))))........(((((.............................))))).......................)))))).. (-16.85 = -16.80 +  -0.05) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:28 2006