Locus 5178

Sequence ID 3R_DroMel_CAF1
Location 13,574,206 – 13,574,309
Length 103
Max. P 0.677451
window8458

overview

Window 8

Location 13,574,206 – 13,574,309
Length 103
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 82.55
Mean single sequence MFE -34.92
Consensus MFE -25.24
Energy contribution -27.68
Covariance contribution 2.44
Combinations/Pair 1.10
Mean z-score -1.68
Structure conservation index 0.72
SVM decision value 0.30
SVM RNA-class probability 0.677451
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13574206 103 + 27905053
GGAAAC--------CCUGUGCUCAGUACGCCGCUUCGUAAAUUUGGCUUUUUAUAGCCGGUACUCGUCGCAAACAAGGGGUAUGUUGUACUCCGGAGGCGUACAAAACAGG
(....)--------(((((.....(((((((((..((.....((((((......))))))....))..))......(((((((...)))))))...)))))))...))))) ( -38.60)
>DroSec_CAF1 15896 103 + 1
GGAAAG--------CCUGUGCUCAGUACGCCGCUCCGUAAAUUUGGCUUUUUAUAGCCGGUACUCGUCGUAAACAAGGGGUAUGUUGUACUCCGGAGGCGUACAAGACAGG
......--------(((((.((..(((((((..((((((....(((((......))))).))).............(((((((...))))))))))))))))).))))))) ( -36.80)
>DroSim_CAF1 15195 103 + 1
GGAAAG--------CCUGUGCUCCGUACGCCGCUCCGUAAAUUUGGCUUUUUAUAGCCGGUACUCGUCGCAAACAAGGGGUAUGUUGUACUCCGGAGGCGUACAAAACAGG
......--------(((((.....(((((((((..((.....((((((......))))))....))..))......(((((((...)))))))...)))))))...))))) ( -38.10)
>DroEre_CAF1 14702 98 + 1
GGAAACCUGGAAACCCCAUGCUCAGUGCGCCGUUCCGUAAAUUUGGCUUUUUAUAGCCGGUACUUGUCGCAAAUGCGGGGUAUGUCGU-------------ACAGAACUGG
(....)..(....).(((.(.((.(((((.(((.(((((....(((((......))))).)))...((((....)))))).))).)))-------------)).)).)))) ( -26.20)
>consensus
GGAAAC________CCUGUGCUCAGUACGCCGCUCCGUAAAUUUGGCUUUUUAUAGCCGGUACUCGUCGCAAACAAGGGGUAUGUUGUACUCCGGAGGCGUACAAAACAGG
..............(((((.....(((((((((..((.....((((((......))))))....))..))......(((((((...)))))))...)))))))...))))) (-25.24 = -27.68 +   2.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:26 2006