Locus 4116

Sequence ID X_DroMel_CAF1
Location 10,848,520 – 10,848,636
Length 116
Max. P 0.800214
window6763

overview

Window 3

Location 10,848,520 – 10,848,636
Length 116
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 81.00
Mean single sequence MFE -40.45
Consensus MFE -23.60
Energy contribution -23.35
Covariance contribution -0.25
Combinations/Pair 1.16
Mean z-score -2.22
Structure conservation index 0.58
SVM decision value 0.61
SVM RNA-class probability 0.800214
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10848520 116 - 22224390
AGCAACGAAAGGGGUC----GUGAUGUGGGCGUGGCUCGCGCAUGCUGGCUUUUAAUUAAAAUUAAGCAACGCCAACGGCGGCCGCUAAAAACAUGCAAGUGCAAUGCAUUUGCUUAUCA
(((..(....).((((----((..(((.(((((((((.((....)).))))((((((....))))))..))))).))))))))))))........((((((((...))))))))...... ( -38.60)
>DroSec_CAF1 2534 108 - 1
--------AAGGGGUC----GGCAUGGGGGCGUGGCUCGCGCAUGCUGGCUUUUAAUUAAAAUUAAGCAACGCCAACGGCGGCCGCUAAAAACAUGCAAGUGCAAUGCAUUUGUUUAUCA
--------.(((((((----(((((((((((...)))).).)))))))))))))...........(((..((((...))))...)))........((((((((...))))))))...... ( -36.00)
>DroSim_CAF1 2613 108 - 1
--------AAGGGGUC----GGCAUGGGGGCGUGGCUCGCGCAUGCUGGCUUUUAAUUAAAAUUAAGCAACGCCAACGGCGGCCGCUAAAAACAUGCAAGUGCAAUGCAUUUGUUUAUCA
--------.(((((((----(((((((((((...)))).).)))))))))))))...........(((..((((...))))...)))........((((((((...))))))))...... ( -36.00)
>DroYak_CAF1 2598 120 - 1
CCCAACAAAAGGGGUGCGGGGGAAAGGGGGGGGGGCCCCCCCAUGCGGGCUUUUAAUUAAAAUUAACCACCCCCCCCGGGGGCACCAAAAAACGGGCAAGCCCAAGGCUUUUGUUUACCA
...((((((((.((((((((((...(((((((...)))))))....(((...(((((....)))))...))))))))....))))).......(((....)))....))))))))..... ( -51.20)
>consensus
________AAGGGGUC____GGCAUGGGGGCGUGGCUCGCGCAUGCUGGCUUUUAAUUAAAAUUAAGCAACGCCAACGGCGGCCGCUAAAAACAUGCAAGUGCAAUGCAUUUGUUUAUCA
............(((................(((((.(((...((.((((.((((((....))))))....)))).)))))))))).........((((((((...))))))))..))). (-23.60 = -23.35 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:43 2006