Locus 3710

Sequence ID 3R_DroMel_CAF1
Location 10,086,213 – 10,086,333
Length 120
Max. P 0.874929
window5944

overview

Window 4

Location 10,086,213 – 10,086,333
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.39
Mean single sequence MFE -43.52
Consensus MFE -26.62
Energy contribution -27.43
Covariance contribution 0.81
Combinations/Pair 1.40
Mean z-score -2.33
Structure conservation index 0.61
SVM decision value 0.89
SVM RNA-class probability 0.874929
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10086213 120 + 27905053
GUUAGAUUCUCCACCCGGUGCUUGGCAGCCUCCAGGAGCUGCGUCUUCUCGGCCAGCUCCUGCUGCGCUCCACUGGCCACGUUCUCGAUAUUGGCCAGAUUGGACGUGGCGGCUAUCACA
.................(((..((((.(((..(((((((((.(((.....))))))))))))..(((.(((((((((((((....))....)))))))..)))))))))).)))).))). ( -51.60)
>DroVir_CAF1 197837 120 + 1
UAUAGACUCUCUACGCGAUUCUUGGCCGCUUCCAGGAGCUGGGUUUUCUCGGCCAGCUCCUGCUGUGCACCAUUUGCCACGCUCUCAAUGUUGACCAGAUUCGCCGUGAAAGCGGCCACC
...(((.((.......)).)))(((((((((.((((((((((.(......).))))))))))(((..((.((((.((...))....)))).))..)))...........))))))))).. ( -41.30)
>DroGri_CAF1 175312 120 + 1
UUUAAUCCCUCUACGCGAUUCUUCGCCGCUUCCAGCAGCUGACUCUUCUCCGCCAGCUCCUGUUGUGCACCCGAUGCGACGUUCUCAAUAUUACCCAGAUUCGAGGUCGCUGCGCUCACC
..............((((....))))......(((.(((((.(........).))))).)))..(((((......(((((...(((...(((.....)))..)))))))))))))..... ( -26.30)
>DroEre_CAF1 157233 120 + 1
CUAAGAUUCUCCACACGAUGCUUGGCCGCCUCCAGGAGCUGUGUCUUCUCGGCCAGCUCCUGCUGCGCACCACUUGCUACGUUCUCGAUAUUGGCCAGAUUGGACGUGGCGGCCAUCACC
......................((((((((..(((((((((.(((.....))))))))))))..).)).......(((((((((.................))))))))))))))..... ( -46.03)
>DroYak_CAF1 152232 120 + 1
CUGAGAUUCUCCACCCUAUGCUUGGCCGCCUCCAGGAGCUGUGUCUUCUCGGCCAGCUCCUGCUGUGCGCCACUUGCCACGUUCUCGAUAUUGGCCAGAUUGGCCGUGGCGGCCAUCACC
......................((((((((..(((((((((.(((.....))))))))))))..).))(((((......((....)).....((((.....))))))))))))))..... ( -51.00)
>DroMoj_CAF1 176708 120 + 1
UUGAGGCCCUCCACGCGAUUCUUGGCCGCCUCCAGGAGUUGUGUUUUCUCAGCCAGCUCCUGCUGCGCACCGUUUGCCACAUUCUCAAUAUUGGCCAGAUUUGCCGUGAAGGCGGCUACC
...((.((((.(((((((.(((.((((((...(((((((((.(((.....))))))))))))..))(((.....)))...............))))))).))).)))).))).).))... ( -44.90)
>consensus
UUUAGACUCUCCACGCGAUGCUUGGCCGCCUCCAGGAGCUGUGUCUUCUCGGCCAGCUCCUGCUGCGCACCACUUGCCACGUUCUCAAUAUUGGCCAGAUUGGACGUGGCGGCGAUCACC
....(((((.((((.(((...((((((((...(((((((((.(((.....))))))))))))..))(((.....)))...............))))))..)))..)))).))..)))... (-26.62 = -27.43 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:03 2006