Locus 9055

Sequence ID 3R_DroMel_CAF1
Location 24,208,235 – 24,208,342
Length 107
Max. P 0.872414
window14501

overview

Window 1

Location 24,208,235 – 24,208,342
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.64
Mean single sequence MFE -30.97
Consensus MFE -12.44
Energy contribution -13.00
Covariance contribution 0.56
Combinations/Pair 1.30
Mean z-score -2.48
Structure conservation index 0.40
SVM decision value 0.88
SVM RNA-class probability 0.872414
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24208235 107 - 27905053
GG-GGUUGGAGGUCAAAUAAUGAAAGAAAUAACCGGGG------AAAA---AAGCGAAUGGA-AAACGCUA--GUUGAGGGUGUGGAAAAAUCCCCUUCGGUGGCUGCAAGGCGACCCCA
((-(((((..((((..........(....).(((((((------....---.((((......-...)))).--.....(((..(....)...))))))))))))))......))))))). ( -29.90)
>DroSec_CAF1 30954 107 - 1
GG-GGUUGGAGGUCAAAUAAUGAAAGAAAUAACCGGGG------AAAA---AAGCGAAUGGA-AAACGCUA--GUUGAGGGUGUGGAAAAAUCCCCUUCGGUGGCUGCAGGUCGACCCCA
((-((((((.((((..........(....).(((((((------....---.((((......-...)))).--.....(((..(....)...)))))))))))))).....)))))))). ( -32.10)
>DroSim_CAF1 34866 107 - 1
GG-GGUUGGAGGUCAAAUAAUGAAAGAAAUAACCGGGG------AAAA---AAGCGAAUGGA-AAACGCUA--GUUGAGGGUGUGGAAAAAUCCCCUUCGGUGGCUGCAGGGCGACCCCA
((-(((((..((((..........(....).(((((((------....---.((((......-...)))).--.....(((..(....)...))))))))))))))......))))))). ( -29.90)
>DroEre_CAF1 35696 111 - 1
GGGGGUUGGAGGUCAAAUAAUGAAAGAAAUAACCAGGG------AAA--AAGAGCGAAUGGG-AAACGGUUGCGUUGGGGGCGUGGUAAAAUCCCCACUGCUGGUUGUGGGGCAAGCCCA
.(((.(((....(((.....))).....((((((((..------...--...(((((((.(.-...).))).))))(((((..(....)..)))))....))))))))....))).))). ( -34.70)
>DroYak_CAF1 32705 110 - 1
GG-GGUUGGAGGUCAAAUAAUGAAAGAAAUAACUGGGG------AAAAAAAGAGCGAAUGGG-AAACGGUA--GUUGAGGGUGUGGAAAAAUCCCCUCUGUUGGUUGUGGGGCGACCCCA
((-(((((....(((.....))).....(((((..(.(------........(((..((.(.-...).)).--)))(((((..(......)..)))))).)..)))))....))))))). ( -31.70)
>DroAna_CAF1 29223 107 - 1
AA-GA--GAAAGCGGAAUAAUGAAAGG-AUAGUGGGGGCGGCAGGAAG---AAUUGGACGGAUGAAAGCAU--ACUGGGGGCG----AGAACCGCCGUCGGUGGUUUAGGGGCAACCCCA
..-..--....................-......((((..((......---..((((((..(((....)))--(((((.((((----.....)))).))))).))))))..))..)))). ( -27.50)
>consensus
GG_GGUUGGAGGUCAAAUAAUGAAAGAAAUAACCGGGG______AAAA___AAGCGAAUGGA_AAACGCUA__GUUGAGGGUGUGGAAAAAUCCCCUUCGGUGGCUGCAGGGCGACCCCA
...(((((....(((.....)))......))))).((.......................................(((((.((......)).))))).(((.(((....))).))))). (-12.44 = -13.00 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:40 2006