Locus 1953

Sequence ID X_DroMel_CAF1
Location 5,348,796 – 5,348,886
Length 90
Max. P 0.735396
window3175

overview

Window 5

Location 5,348,796 – 5,348,886
Length 90
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 79.02
Mean single sequence MFE -26.02
Consensus MFE -15.56
Energy contribution -17.04
Covariance contribution 1.48
Combinations/Pair 1.19
Mean z-score -1.87
Structure conservation index 0.60
SVM decision value 0.44
SVM RNA-class probability 0.735396
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5348796 90 + 22224390
AUUUCUAU-------GUUGGGAAAACAAGUUUAAUUCACUU----------------------UUGUACCAUUUGAGUGCUGCAAACGGCAACAGUUGCCGCAUUUAAAUGCGACUAGA
...((((.-------((((.....(((((...........)----------------------))))..(((((((((((.((((..(....)..)))).))))))))))))))))))) ( -26.10)
>DroSec_CAF1 24204 97 + 1
AUUUCAAUGGAGUUGGUUGGGAAAACAAGUUUAAUUCACUU----------------------UUGUACCAUUUGAGUGCUGAGAACGGAAACAGUUUCCGCAUUUAAAUGCGACUAGA
............(((((((.....(((((...........)----------------------))))..(((((((((((.((((..(....)..)))).)))))))))))))))))). ( -24.90)
>DroSim_CAF1 21689 97 + 1
AUUUCAAUGGAGUUGGUUGGGAAAACAAGUUUAAUUCACUU----------------------UUGUACCAUUUGAGUGCUGUGAACGGCAACAGUUUCCGCAUUUAAAUGCGACUAGA
............(((((((.....(((((...........)----------------------))))..(((((((((((.(..((((....).)))..))))))))))))))))))). ( -22.80)
>DroEre_CAF1 26545 95 + 1
AUUUGAAUGGAGUUAGUUGGGAAAACAAGUUAAAUUCACUU------------------------GUGCCAUUUGUGUGCUGUGAACGGCAACAGUUUCCGCAUUUAAAUGGGACUAGA
.......((((.(((((((......))).)))).))))((.------------------------((.(((((((.((((.(..((((....).)))..))))).))))))).)).)). ( -24.70)
>DroYak_CAF1 25889 119 + 1
AUUUCAAUGGCAAUAACUGGGAUAACAAGUUAAAUACACUUGUGUGUGUGUGUGCAGGAUUAUUUGUGCCAUUUGCGUGCUGUGAACGGCAACAGUUAGCAUAUUUAAAUGCGUCUAGA
........(((..((((((.....((((((.......))))))..(((.(((.(((.((....)).)))))).))).(((((....))))).))))))((((......))))))).... ( -31.60)
>consensus
AUUUCAAUGGAGUUAGUUGGGAAAACAAGUUUAAUUCACUU______________________UUGUACCAUUUGAGUGCUGUGAACGGCAACAGUUUCCGCAUUUAAAUGCGACUAGA
.............((((((.......((((.......))))............................(((((((((((.((((..(....)..)))).))))))))))))))))).. (-15.56 = -17.04 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:41 2006