Locus 4503

Sequence ID 2L_DroMel_CAF1
Location 12,911,156 – 12,911,250
Length 94
Max. P 0.873325
window7083

overview

Window 3

Location 12,911,156 – 12,911,250
Length 94
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 77.12
Mean single sequence MFE -26.70
Consensus MFE -15.54
Energy contribution -15.85
Covariance contribution 0.31
Combinations/Pair 1.23
Mean z-score -1.91
Structure conservation index 0.58
SVM decision value 0.88
SVM RNA-class probability 0.873325
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12911156 94 + 22407834
AAAAUCCAAAGCCAAAGCCCCGGCCCGA----CUUGCAGGAGCAGCAGCCACCAAUUAAUGUCCUUGUUAGGCAGUGGCCUGUAAAAUUGGCUUAAAA
........(((((((.((.((.((....----...)).)).)).((((((((...(((((......)))))...)))).))))....))))))).... ( -27.70)
>DroPse_CAF1 105818 89 + 1
-----CCAGAGCCGGCGUCAGAGCCUGG----CUAGCUGAAGCAGCAGCUACCAAUUAAUGUCCUUGUUAGGCAGUGGCCUGUAAAAUUGGCUUAAAA
-----...(((((((...(((.((((((----.((((((......))))))))).....((.(((....)))))..)))))).....))))))).... ( -30.20)
>DroYak_CAF1 92385 94 + 1
AAAAUCCAAAGCCAAAGCCCCGGCCUGA----CUUGCAGGAGCAGCAGCCACCAAUUAAUGUCCUUGUUAGGCACUGGCCUGUAAAAUUGGCUUAAAA
........(((((((.((....))....----.(((((((..(((..(((..(((.........)))...))).))).)))))))..))))))).... ( -25.80)
>DroMoj_CAF1 135579 94 + 1
AGCAGCAGCAGCAGACG-CAGGAGCUGAGGCAGGAGCUGGUG---CAGCUACCAAUUAAUGUCCUUGUUAGGCAGUGGCCUGUAAAAUUGGCUUAAAA
.((....)).((....)-)..((((..(.((((((((((...---))))).(((.....((.(((....))))).))))))))....)..)))).... ( -27.50)
>DroAna_CAF1 110381 82 + 1
CAAAGCCAAAGCCAGAACCUGGAC----------------GGCAGCAGCUACCAAUUAAUGUCCUUGUUAAGCAGUGGCCUGAAAAAUUGGCUUAAAA
..(((((((.(((((...)))).)----------------..(((..(((((...(((((......)))))...)))))))).....))))))).... ( -22.10)
>DroPer_CAF1 125925 89 + 1
-----CCAGAGCCGGCGUCAGAACCUGG----CUAGCUGAAGCAGCAGCUACCAAUUAAUGUCCUUGUUAGGCAGUGGCCUGUAAAAUUGGCUUAAAA
-----...((((((((((...((..(((----.((((((......))))))))).)).))))).....(((((....))))).......))))).... ( -26.90)
>consensus
AAAA_CCAAAGCCAAAGCCAGGACCUGA____CUAGCUGGAGCAGCAGCUACCAAUUAAUGUCCUUGUUAGGCAGUGGCCUGUAAAAUUGGCUUAAAA
........(((((((....................((....)).((((((((...(((((......)))))...)))).))))....))))))).... (-15.54 = -15.85 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:23 2006