Locus 4416

Sequence ID X_DroMel_CAF1
Location 11,652,667 – 11,652,777
Length 110
Max. P 0.593378
window7256

overview

Window 6

Location 11,652,667 – 11,652,777
Length 110
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.17
Mean single sequence MFE -30.10
Consensus MFE -20.81
Energy contribution -21.59
Covariance contribution 0.78
Combinations/Pair 1.19
Mean z-score -1.58
Structure conservation index 0.69
SVM decision value 0.12
SVM RNA-class probability 0.593378
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11652667 110 + 22224390
AAUAAAGAG-------CUUAGCUGCAAAAGAGAGGACAGC-AACAAAAUUUCGUUGCAGCUGAGUUGCUGAAAAGUGCGUUUGUGUGUGCAUUCAAGUGCAACUGGCUGUGUG--UUAGA
.(((((.((-------(((((((((((..((((.......-.......)))).)))))))))))))(((....)))...)))))...(((((....))))).(((((.....)--)))). ( -31.74)
>DroSec_CAF1 25989 109 + 1
AAUAAAGAU-------CUUAGCUGCAAAAGAGAGGACAGC-AACAAAAUUUCGUUGCAGCUGAGUUGCUGAAAAAUGCGUUUGUGUGUGCAUUCAAGUGCAACUGGCUGUG-G--UUAGA
.........-------.(((((..(.............((-(((........)))))((((.((((((.....((((((........)))))).....)))))))))))..-)--)))). ( -30.50)
>DroSim_CAF1 22073 110 + 1
AAUAAAGAG-------CUUAGCUGCAAAAGAGAGGACAGC-AACAAAAUUUCGUUGCAGCUGAGUUGCUGAAAAAUGCGUUUGUGUGUGCAUUCAAGUGCAACUGGCUGUGUG--UUAGA
((((.(.((-------(((((((((((..((((.......-.......)))).)))))))))((((((.....((((((........)))))).....)))))))))).).))--))... ( -31.14)
>DroEre_CAF1 28158 106 + 1
----AAGAG-------CUUAGCUGCAAAAGAGAGGAUAGC-AACAACAUUUCGUUGCAGCUGAGUUGCUGAAAAGUGCGUUUGUGUGUGCAUUCAAGUGCAACUGGCUGUGUG--UUAGA
----...((-------(((((((((((..((((.......-.......)))).)))))))))))))(((....)))(((((((.((....)).)))))))..(((((.....)--)))). ( -31.34)
>DroYak_CAF1 25439 109 + 1
AAU-AAGAG-------CAUAGCUGCAAAAGAGAGGACACC-AACAACAUUUCGUUGCAGCUGAGUUGCUGAAAAGUGCGUUUGUGUGUGCAUUCAAGUGCAACUGGCAGUGUG--UUAGA
...-...((-------((((.((((...((.....((((.-(((.((.(((((..(((((...)))))))))).))..))).)))).(((((....))))).)).))))))))--))... ( -30.60)
>DroPer_CAF1 27527 107 + 1
AGCUAGGUGGAUUUGUUUUGGGU--GGGGGAGAGUGAAGCAAACAACAUUUCGUUGCAGCUGAGUGAAUGGC-AUUGCGCUUGUGUGUGCAU----------CUGCCUGUGUGCGUUAAG
.((((((..((((..(((...(.--.(.((((.((..........)).)))).)..)....)))..))....-..(((((......))))))----------)..))))...))...... ( -25.30)
>consensus
AAUAAAGAG_______CUUAGCUGCAAAAGAGAGGACAGC_AACAAAAUUUCGUUGCAGCUGAGUUGCUGAAAAGUGCGUUUGUGUGUGCAUUCAAGUGCAACUGGCUGUGUG__UUAGA
..................(((((((((..((((...............)))).)))))))))((((((.....(((((((......))))))).....))))))................ (-20.81 = -21.59 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:30 2006