Locus 4296

Sequence ID 3R_DroMel_CAF1
Location 11,418,353 – 11,418,473
Length 120
Max. P 0.664588
window7000

overview

Window 0

Location 11,418,353 – 11,418,473
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.50
Mean single sequence MFE -34.42
Consensus MFE -28.52
Energy contribution -29.92
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.41
Structure conservation index 0.83
SVM decision value 0.28
SVM RNA-class probability 0.664588
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11418353 120 + 27905053
GACGCGGCAACUGUCGACAUUUGUUAAAGUUUUCCCAAUUUUUGUUUGCUUUGGCUGCUUCUCCUUGGGACUGCAAUUCAGUUGUCACUUUGACAGCUCACGCAAAGGUUGAUGGAAGCA
......((..((((((((.(((((....((..((((((.....((..((....)).))......))))))..)).....(((((((.....)))))))...))))).))))))))..)). ( -35.50)
>DroSec_CAF1 165950 120 + 1
GACACGGCAACUGUCGACAUUUGUUAAAGUUUUCCCAAUUUUUGUUUGCUCUGGCUGCUUCUCCUUGGGACUGCAAUUCAGUUGUCACUUUGACAGCUCACGCAAACGUUGAUGGCAGCA
......((..((((((((.(((((....((..((((((.....((..((....)).))......))))))..)).....(((((((.....)))))))...))))).))))))))..)). ( -34.90)
>DroSim_CAF1 158757 120 + 1
GACACGGCAACUGUCGACAUUUGUUAAAGUUUUCCCAAUUUUUGUUUGCUCUGGCUGCUUCUCCUUGGGACUGCAAUUCAGUUGUCACUUUGACAGCUCACGCAAAGGUUGAUGGCAGCA
......((..((((((((.(((((....((..((((((.....((..((....)).))......))))))..)).....(((((((.....)))))))...))))).))))))))..)). ( -34.90)
>DroEre_CAF1 153835 119 + 1
GACAGGGCAACUGUCGACAUUUGUUAAAGUUUUCCCAAUUUCUGUUUGCCUUGGCUGCCUCUCCGCGGCACUGCAAUUCAGUUGUCACUUUGACAGCUCACGCAAAGGUUGAUGGAAG-C
....(((.((((...(((....)))..))))..)))..((((((((.(((((.(((((......)))))..(((.....(((((((.....)))))))...)))))))).))))))))-. ( -37.00)
>DroYak_CAF1 158004 120 + 1
GACAGGGCAACUGUCGACAUUUGUUAAAGUUUUCCCAAUUUCUGUUUGCCUUGGCUGCCUCUCCUCUGCACUGCAAUUCAGUUGUCACUUUGACAGCUCACGCAAAGGUUGAUGGACGCC
.....(((..((((((((.(((((..................(((.(((...((........))...)))..)))....(((((((.....)))))))...))))).))))))))..))) ( -29.80)
>consensus
GACACGGCAACUGUCGACAUUUGUUAAAGUUUUCCCAAUUUUUGUUUGCUUUGGCUGCUUCUCCUUGGGACUGCAAUUCAGUUGUCACUUUGACAGCUCACGCAAAGGUUGAUGGAAGCA
......((..((((((((.(((((....((..((((((.....((..((....)).))......))))))..)).....(((((((.....)))))))...))))).))))))))..)). (-28.52 = -29.92 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:10 2006