Locus 5277

Sequence ID X_DroMel_CAF1
Location 13,812,834 – 13,812,930
Length 96
Max. P 0.937408
window8543

overview

Window 3

Location 13,812,834 – 13,812,930
Length 96
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 93.50
Mean single sequence MFE -27.13
Consensus MFE -20.48
Energy contribution -20.68
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.80
Structure conservation index 0.75
SVM decision value 1.26
SVM RNA-class probability 0.937408
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13812834 96 - 22224390
GAAAAACUCUUUAUUAGG----GGGUGGCGGUAGGUCUGCGAAUUAUAUUGCAUA-AAAAC-AAAACGAAGAUGCCGCCGCCAGCAAAUGCAGAAAGUAAAA
......((((.....)))----)((((((((((..(((((((......)))))..-.....-.....))...)))))))))).((....))........... ( -27.40)
>DroSec_CAF1 119226 96 - 1
GAAACACACUUUAUUAGG----GGGUGGCGGGAGGUCUGCGAAUUAUAUUGCAUA-AAAAC-AAAACGAAGAUGCCGCCGCCAGCAAAUGCAGAAAGUAAAA
.......(((((......----.((((((((.(..(((((((......)))))..-.....-.....))...).)))))))).((....))..))))).... ( -24.80)
>DroSim_CAF1 119672 96 - 1
GAAACACACUUUAUUAGG----GGGUGGCGGGAGGUCUGCGAAUUAUAUUGCAUA-AAAAC-AAAACGAAGAUGCCGCCGCCAGCAAAUGCAGAAAGUAAAA
.......(((((......----.((((((((.(..(((((((......)))))..-.....-.....))...).)))))))).((....))..))))).... ( -24.80)
>DroEre_CAF1 121832 96 - 1
GGAAUACUUUUUAUUAGG----GGGUGGCGGGCGGUCUGCGAAUUAUAUUGCAUA-AAAAC-AAAACGAAGAUGCCGCCGCCAGCAAAUGCAGAAAGUAAAA
....((((((((....((----.(((((((..((...(((((......)))))..-.....-....))....))))))).)).((....))))))))))... ( -28.04)
>DroYak_CAF1 131956 102 - 1
GGAAUACUUUUUAUUAGGUGUGGGUUGGCGGGCGGUCUGCGAAUUAUAUUGCAUACAAAACAAAAACGAAGAUGCCGCCGCCAGCAAAUGCAGAAAGUAAAA
....((((((((.....((((..((((((((.((((.(((((......))))).......(......).....))))))))))))..))))))))))))... ( -30.60)
>consensus
GAAACACUCUUUAUUAGG____GGGUGGCGGGAGGUCUGCGAAUUAUAUUGCAUA_AAAAC_AAAACGAAGAUGCCGCCGCCAGCAAAUGCAGAAAGUAAAA
.........((((((........((((((((...((((((((......))))........(......).)))).)))))))).((....))....)))))). (-20.48 = -20.68 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:48 2006