Locus 8658

Sequence ID X_DroMel_CAF1
Location 21,934,914 – 21,935,006
Length 92
Max. P 0.762417
window14229

overview

Window 9

Location 21,934,914 – 21,935,006
Length 92
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 87.43
Mean single sequence MFE -27.38
Consensus MFE -20.02
Energy contribution -20.52
Covariance contribution 0.50
Combinations/Pair 1.17
Mean z-score -1.87
Structure conservation index 0.73
SVM decision value 0.51
SVM RNA-class probability 0.762417
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21934914 92 + 22224390
GAAAACGACG-AUGCGCUGGGUGCGGCUGCCAGAGGUAAAAAGUAGGGGACCACAAGUGUCUUCGGGUAGCGAAAGAAAUGAAAGUUGCCUUG
.....((((.-...(((.....)))((((((.((((......((.(....).))......)))).)))))).............))))..... ( -24.40)
>DroSim_CAF1 12141 88 + 1
--AAACGACAAAUGCGCUGGGUGCGGCUGCCAGA-GUAAAAAGUAGAGGACCACAAGUGUCUUCUGGUAGCGAAAGAA-UG-AAGUUGCCUAA
--...((((.....(((.....)))(((((((((-............(((((....).))))))))))))).......-..-..))))..... ( -23.40)
>DroEre_CAF1 66882 92 + 1
UAAAACGGCAAAUGC-CUGGGUGCGGCUGCCGGAGGUGAAAAGUAGGGGACCACAAGUGUCUUCGGGUAGCGAAAGGAAUGAAAGUUGCCCCA
......(((....))-).(((.((.((((((.((((......((.(....).))......)))).))))))......(((....)))))))). ( -32.20)
>DroYak_CAF1 72289 92 + 1
UAAAACGGCAAAUGC-UUGGGUGCGGCUGCCAGAGGUGAAAAGUGGAGGACCACAAGUGUCUUCGGGUAGCGAAAGGUAUGAAAGUUGCCCCA
......(((....))-)((((.((((((.((..((..(....((((....))))...)..))..))(((.(....).)))...)))))))))) ( -29.50)
>consensus
UAAAACGACAAAUGC_CUGGGUGCGGCUGCCAGAGGUAAAAAGUAGAGGACCACAAGUGUCUUCGGGUAGCGAAAGAAAUGAAAGUUGCCCCA
......((((..(((((...)))))..))))..............(((((((....).))))))(((((((.............))))))).. (-20.02 = -20.52 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:34 2006