Locus 3438

Sequence ID 2R_DroMel_CAF1
Location 11,589,265 – 11,589,379
Length 114
Max. P 0.729750
window5611

overview

Window 1

Location 11,589,265 – 11,589,379
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.01
Mean single sequence MFE -39.20
Consensus MFE -37.38
Energy contribution -37.78
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.14
Structure conservation index 0.95
SVM decision value 0.42
SVM RNA-class probability 0.729750
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11589265 114 + 20766785
CACCCAACAGGAUUGAGUUACAGCUUGUGUCCGGG------GCCAAAAGGCGAAUGGUGUGCCGCCACAUAUGGAGCAGGCUUUAAGUGCAAUUGUAUAUCCUUGCUCGGUUUUUGCGGU
((((.....(((((((((....))))).))))...------(((....)))....)))).(((((.....((.(((((((......((((....))))...))))))).))....))))) ( -35.00)
>DroSec_CAF1 22834 114 + 1
CACCCAACCGGAUUGAGUUACAGCUUGUGUCCGGG------GCCAAAAGGCGAAUGGUGUGCCGCCACAUAUGGAGCAGGCUUUAAGUGCAAUUGUAUAUCCUUGCUCGGUUUUUGCGGU
((((...(((((((((((....))))).)))))).------(((....)))....)))).(((((.....((.(((((((......((((....))))...))))))).))....))))) ( -40.60)
>DroSim_CAF1 26111 114 + 1
CACCCAACCGGAUUGAGUUACAGCUUGUGUCCGGG------GCCAAAAGGCGAAUGGUGUGCCGCCACAUAUGGAGCAGGCUUUAAGUGCAAUUGUAUAUCCUUGCUCGGUUUUUGCGGU
((((...(((((((((((....))))).)))))).------(((....)))....)))).(((((.....((.(((((((......((((....))))...))))))).))....))))) ( -40.60)
>DroEre_CAF1 23520 113 + 1
CACCCAACCGGAUUGAGUUACAGCUAGUGUCCGGG------GCC-AGAGGCGAAUGGGGUGCCGCCACAUAUGGAGCAGGCUUUAAGUGCAAUUGUAUAUCCUUGCUCGGUUUCUGCGGU
(((((..((((((..(((....)))...)))))).------(((-...))).....)))))((((.....((.(((((((......((((....))))...))))))).))....)))). ( -42.00)
>DroYak_CAF1 23594 119 + 1
CACCCAACCGGAUUGAGUUACAGCUAGUGUCCGGGAGCAAAGCA-AAAGGCGAAUGGUGUGCCGCCACAUAUGGAGCAGGCUUUAAGUGCAAUUGUAUAUCCUUGCUCGGUUUCUGCGGU
((((...((((((..(((....)))...)))))).......((.-....))....)))).(((((.....((.(((((((......((((....))))...))))))).))....))))) ( -37.80)
>consensus
CACCCAACCGGAUUGAGUUACAGCUUGUGUCCGGG______GCCAAAAGGCGAAUGGUGUGCCGCCACAUAUGGAGCAGGCUUUAAGUGCAAUUGUAUAUCCUUGCUCGGUUUUUGCGGU
((((((.((((((..(((....)))...)))))).......(((....)))...))).)))((((.....((.(((((((......((((....))))...))))))).))....)))). (-37.38 = -37.78 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:31 2006