Locus 3336

Sequence ID 2R_DroMel_CAF1
Location 11,341,128 – 11,341,245
Length 117
Max. P 0.891498
window5459

overview

Window 9

Location 11,341,128 – 11,341,245
Length 117
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 98.58
Mean single sequence MFE -40.23
Consensus MFE -39.91
Energy contribution -40.23
Covariance contribution 0.31
Combinations/Pair 1.03
Mean z-score -2.19
Structure conservation index 0.99
SVM decision value 0.97
SVM RNA-class probability 0.891498
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11341128 117 + 20766785
UUGCAGUUGGCAACCAUUGUCGCCUCCUUCUGGGGGCGAUCCCUCCGAUGCCUCCUCCGCGGGCGAUCGAUAGUUAUGGUCGUGUCAGACAUCCUGUAAUUUCGCCAUUCCCCCUCC
.(((((..((((......(((((((((....)))))))))........))))..))..)))(((((...((((.....(((......)))...))))....)))))........... ( -38.34)
>DroSec_CAF1 128956 116 + 1
-UGCAGUUGGCAACCAUUGUCGCCUCCUUCUGGGGGCGAUCCCUCCGUUGCCUCCUCCGCGGGCGAUCGAUAGUUAUGGUCGUGUCAGACAUCCUGUAAUUUCGCCAUUCCCCCUCC
-.((((..((((((....(((((((((....)))))))))......))))))..))..)).(((((...((((.....(((......)))...))))....)))))........... ( -42.30)
>DroSim_CAF1 134701 117 + 1
UUGCAGUUGGCAACCAUUGUCGCCUCCUUCUGGGGGCGAUCCCUCCGUUGCCUCCUCCGCGGGCGAUCGAUAGUUAUGGUCGUGUCAGACAUCCUGUAAUUUCGCCAUUCCCCCUCC
.(((((..((((((....(((((((((....)))))))))......))))))..))..)))(((((...((((.....(((......)))...))))....)))))........... ( -42.50)
>DroYak_CAF1 132011 117 + 1
UUGCAGUUGGCAACCAUUGUCGCCUCCUUCUGGGGGCGAUCCCUCCGAUGUCUCCUCCGCGGGCGAUCGAUAGUUAUGGUCGUGUCAGACAUCCUGUAAUUUCGCCAUUCCCCCUCC
.......((((.......(((((((((....)))))))))......(((((((((.....))(((((((.......)))))))...)))))))..........)))).......... ( -37.80)
>consensus
UUGCAGUUGGCAACCAUUGUCGCCUCCUUCUGGGGGCGAUCCCUCCGAUGCCUCCUCCGCGGGCGAUCGAUAGUUAUGGUCGUGUCAGACAUCCUGUAAUUUCGCCAUUCCCCCUCC
.(((((..((((((....(((((((((....)))))))))......))))))..))..)))(((((...((((.....(((......)))...))))....)))))........... (-39.91 = -40.23 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:04 2006