Locus 4299

Sequence ID 3R_DroMel_CAF1
Location 11,419,637 – 11,419,754
Length 117
Max. P 0.996822
window7005

overview

Window 5

Location 11,419,637 – 11,419,754
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.91
Mean single sequence MFE -34.37
Consensus MFE -30.34
Energy contribution -30.74
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.88
SVM decision value 2.75
SVM RNA-class probability 0.996822
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11419637 117 + 27905053
AAAUGGUUGUGGCGGCUGAUUUUUUAUUUCGGUUUUU--UUUGCUUUCUCUUCUU-UUUUGCCAUAAAUAAAAUCUUGCUGGCAAAGUGAAGGAGUGAAAAAGCGGGCGGCACAUCGUCU
..(((((.(((.((.(((.((((((((((((((....--...))).....(((..-(((((((((((........))).)))))))).)))))))))))))).))).)).)))))))).. ( -34.00)
>DroSec_CAF1 167197 120 + 1
AAAUGGUUGUGGCGGCUGAUUUUUUAUUUCGGUCUUUUUUUAGCUUUCUUCUCUUUUUUUGCCAUAAAUAAAAUCUUGCUGGCAAAGUGAAGGAGUGAAAAAGCGGGCGGCACAUCGUCU
..((((((((.((((((((.........))))))........(((((.(((((((((((((((((((........))).)))))))..))))))).)).)))))..)).))).))))).. ( -34.10)
>DroSim_CAF1 160015 120 + 1
AAAUGGUUGUGGCGGCUGAUUUUUUAUUUCGGUCUUUUUUUAGCUUUCUUCUCUUUUUUUGCCAUAAAUAAAAUCUUGCUGGCAAAGUGAAGGAGUGAAAAAGCGGGCGGCACAUCGUCU
..((((((((.((((((((.........))))))........(((((.(((((((((((((((((((........))).)))))))..))))))).)).)))))..)).))).))))).. ( -34.10)
>DroEre_CAF1 155218 113 + 1
AAAUGGCUGUGGCGGCUGAUUUUUUAUUUCGGUUU-----UCGCUUUUGCUUCU--UUUUGCCAUAAAUAAAAUCUUGCCGGCAAAGUGAAGGAGUGAAAAAGCGGGCGGCACAUCGUCU
....(((((((.((.(((.(((((((((((.....-----..((....))(((.--(((((((.................))))))).)))))))))))))).))).)).))))..))). ( -34.83)
>DroYak_CAF1 159358 113 + 1
AAAUGGCUGUGGCGGCUGAUUUUUUAUUUCGGUUU-----UCGCUUCUGCUUCU--UUUUGCCAUAAAUAAAAUCUUGCCGGCAAAGUGAAGGAGUGAAAAAGCGGGCGGCACAUCGUCU
....(((((((.((.(((.(((((((((((.....-----..((....))(((.--(((((((.................))))))).)))))))))))))).))).)).))))..))). ( -34.83)
>consensus
AAAUGGUUGUGGCGGCUGAUUUUUUAUUUCGGUUUUU__UUAGCUUUCUCUUCUU_UUUUGCCAUAAAUAAAAUCUUGCUGGCAAAGUGAAGGAGUGAAAAAGCGGGCGGCACAUCGUCU
..((((.((((.((.(((.((((((((((((((.........)))......((...(((((((((((........))).)))))))).)).))))))))))).))).)).)))))))).. (-30.34 = -30.74 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:15 2006