Locus 3834

Sequence ID X_DroMel_CAF1
Location 10,178,576 – 10,178,687
Length 111
Max. P 0.626492
window6308

overview

Window 8

Location 10,178,576 – 10,178,687
Length 111
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.68
Mean single sequence MFE -28.23
Consensus MFE -18.95
Energy contribution -19.70
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.67
SVM decision value 0.19
SVM RNA-class probability 0.626492
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10178576 111 - 22224390
UUUUGCC-----AGCUGGAAAUU--UCAAAAGGAAUUUCGUUAUUUAUUGUGCAAGACGAAAGACAAACAAAAGUCAAUGCUUUUGUUCAGGUCGCCGACAAUACA--GGCAGAGAUUCU
(((((((-----.....((((((--((....))))))))......((((((((....(....)...(((((((((....)))))))))......))..))))))..--)))))))..... ( -28.80)
>DroSec_CAF1 7231 110 - 1
-UUUGCC-----AGCUGGAAAUU--UCAAAAGGAAUUUCGGUAUUUAUUGUGCAAGACGAAAGACAAACAAAAGUCAAUGCUUUUGUUCAGGGCGCCGACAAUACA--GGCAGAGAUUCU
-((((((-----.....((((((--((....)))))))).(((((....((((....(....)...(((((((((....)))))))))....))))....))))).--))))))...... ( -31.50)
>DroSim_CAF1 7788 110 - 1
-NNNNCC-----UGGCGGAAAUG--UCAAAAGGAAUUUGUUUAUUUAUUGUGCAUGAUGAAAGACAUACAAAAGUCAAUGCUUUUGUUCAGGUCGCCGACAAUACA--GGCAGAGAUUCU
-......-----(((((....))--)))...(((((((.....((((((......)))))).(((..((((((((....))))))))....)))(((.........--)))..))))))) ( -23.60)
>DroYak_CAF1 11345 119 - 1
-UUUGCGAGAAAAGCCAGAAAUUUUUGAAAAGGAAUUUCGUUAUUUAUUGUGCAAGACGAAAGACAAACAAAAGUCAAUGCUUUUGUUCAGGUCGCCGACAAUACAGAGGCAGAGAUUCU
-((((((...(((....(((((((((....)))))))))....)))....)))))).(....).........((((..(((((((((....(((...)))...)))))))))..)))).. ( -29.00)
>consensus
_UUUGCC_____AGCCGGAAAUU__UCAAAAGGAAUUUCGUUAUUUAUUGUGCAAGACGAAAGACAAACAAAAGUCAAUGCUUUUGUUCAGGUCGCCGACAAUACA__GGCAGAGAUUCU
...............................((((((((.......................(((.(((((((((....)))))))))...)))(((...........))).)))))))) (-18.95 = -19.70 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:52 2006