Locus 4238

Sequence ID	3L_DroMel_CAF1
Location	12,407,642 – 12,407,756
Length	114
Max. P	0.989364

overview

Window 9

Location	12,407,642 – 12,407,756
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	97.37
Mean single sequence MFE	-45.94
Consensus MFE	-44.10
Energy contribution	-43.98
Covariance contribution	-0.12
Combinations/Pair	1.05
Mean z-score	-1.72
Structure conservation index	0.96
SVM decision value	2.16
SVM RNA-class probability	0.989364
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12407642 114 + 23771897
ACUUGGCCGGACGAGAAACCAAUGAAUCCACGUUGGACGCGACUCCACUCAUUUUGGCCAACCACCGCGGUGGUUACUAGCCAAGUGGGGUGUGCAGUUUGGGUGGCAAGGAGG
.(((.((((..((((...((((((......))))))..(((((((((((.....((((.((((((....))))))....)))))))))))).)))..))))..)))).)))... ( -45.10)
>DroSec_CAF1 10240 114 + 1
ACUUGGCCGGACGAGAAACCAAUGAAUCCGCGUUGGACGCGACUCCACUCGUUUUGGCCAACCACCGCGGUGGUUACUAGCCAAGUGGGGUGUGCAGUUUGGGUGGCAAGAAGG
.((((.(((..((((...((((((......))))))..(((((((((((.....((((.((((((....))))))....)))))))))))).)))..))))..))))))).... ( -45.00)
>DroSim_CAF1 10216 114 + 1
ACUUGGCCGGACGAGAAACCAAUGAAUCCGCGUUGGACGCGACUCCACUCGUUUUGGCCAACCACCGCGGUGGUUACUAGCCAAGUGGGGUGUGCAGUUUGGGUGGCAAGAAGG
.((((.(((..((((...((((((......))))))..(((((((((((.....((((.((((((....))))))....)))))))))))).)))..))))..))))))).... ( -45.00)
>DroEre_CAF1 10570 114 + 1
ACUUGGCCGGACGAGAAACCAAUGAAUCCGCGUUGGACGCGACUCCACUCGUUUUGGCCAACCACCGCGGUGGUUACUGGCCAAGUGGGGUGUGCAGUUUGGGUGGUAAGAAGG
.((((.(((..((((...((((((......))))))..(((((((((((.....(((((((((((....)))))...)))))))))))))).)))..))))..))))))).... ( -47.30)
>DroYak_CAF1 11088 114 + 1
ACUUGGCCGGACGAGAAACCAAUGAAUCCGCGUUGGACGCGACUCCACUCGUUUUGGCCAACCACCGCGGUGGCUACUGGCCAGGUGGGGUGUGCAGUUUGGGUGGCAAGAAGG
.((((.(((..((((...((((((......))))))..(((((((((((.....((((((.((((....))))....)))))))))))))).)))..))))..))))))).... ( -47.30)
>consensus
ACUUGGCCGGACGAGAAACCAAUGAAUCCGCGUUGGACGCGACUCCACUCGUUUUGGCCAACCACCGCGGUGGUUACUAGCCAAGUGGGGUGUGCAGUUUGGGUGGCAAGAAGG
.((((.(((..((((...((((((......))))))..(((((((((((.....((((.((((((....))))))....)))))))))))).)))..))))..))))))).... (-44.10 = -43.98 +  -0.12)

alignment

secondary structure

dotplot

Window 0

Location	12,407,642 – 12,407,756
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	97.37
Mean single sequence MFE	-38.74
Consensus MFE	-38.84
Energy contribution	-38.32
Covariance contribution	-0.52
Combinations/Pair	1.13
Mean z-score	-1.51
Structure conservation index	1.00
SVM decision value	1.78
SVM RNA-class probability	0.976868
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12407642 114 - 23771897
CCUCCUUGCCACCCAAACUGCACACCCCACUUGGCUAGUAACCACCGCGGUGGUUGGCCAAAAUGAGUGGAGUCGCGUCCAACGUGGAUUCAUUGGUUUCUCGUCCGGCCAAGU
............................((((((((...((((((....))))))(((..((((.((((((..((((.....))))..)))))).))))...))).)))))))) ( -35.20)
>DroSec_CAF1 10240 114 - 1
CCUUCUUGCCACCCAAACUGCACACCCCACUUGGCUAGUAACCACCGCGGUGGUUGGCCAAAACGAGUGGAGUCGCGUCCAACGCGGAUUCAUUGGUUUCUCGUCCGGCCAAGU
............................((((((((...((((((....))))))(((..((((.((((((..((((.....))))..)))))).))))...))).)))))))) ( -38.50)
>DroSim_CAF1 10216 114 - 1
CCUUCUUGCCACCCAAACUGCACACCCCACUUGGCUAGUAACCACCGCGGUGGUUGGCCAAAACGAGUGGAGUCGCGUCCAACGCGGAUUCAUUGGUUUCUCGUCCGGCCAAGU
............................((((((((...((((((....))))))(((..((((.((((((..((((.....))))..)))))).))))...))).)))))))) ( -38.50)
>DroEre_CAF1 10570 114 - 1
CCUUCUUACCACCCAAACUGCACACCCCACUUGGCCAGUAACCACCGCGGUGGUUGGCCAAAACGAGUGGAGUCGCGUCCAACGCGGAUUCAUUGGUUUCUCGUCCGGCCAAGU
............................((((((((...((((((....))))))(((..((((.((((((..((((.....))))..)))))).))))...))).)))))))) ( -41.20)
>DroYak_CAF1 11088 114 - 1
CCUUCUUGCCACCCAAACUGCACACCCCACCUGGCCAGUAGCCACCGCGGUGGUUGGCCAAAACGAGUGGAGUCGCGUCCAACGCGGAUUCAUUGGUUUCUCGUCCGGCCAAGU
....((((((.....................((((((...(((((....)))))))))))((((.((((((..((((.....))))..)))))).)))).......)).)))). ( -40.30)
>consensus
CCUUCUUGCCACCCAAACUGCACACCCCACUUGGCUAGUAACCACCGCGGUGGUUGGCCAAAACGAGUGGAGUCGCGUCCAACGCGGAUUCAUUGGUUUCUCGUCCGGCCAAGU
............................((((((((...((((((....))))))(((..((((.((((((..((((.....))))..)))))).))))...))).)))))))) (-38.84 = -38.32 +  -0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:30 2006