Locus 1518

Sequence ID 2L_DroMel_CAF1
Location 4,118,973 – 4,119,080
Length 107
Max. P 0.907772
window2461

overview

Window 1

Location 4,118,973 – 4,119,080
Length 107
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 80.67
Mean single sequence MFE -26.73
Consensus MFE -16.81
Energy contribution -17.37
Covariance contribution 0.56
Combinations/Pair 1.24
Mean z-score -2.55
Structure conservation index 0.63
SVM decision value 1.06
SVM RNA-class probability 0.907772
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4118973 107 + 22407834
CAAAACCACUGGCAACAGUGGCUACGCCGCAAAUAAAAGAAUAAUAA---UAAUAAUGAGCAAAUAUUUAAGCAGCCGGGAACUUAUCAGUGAAACAGCGGCAG---UCAGCG
......(((((....)))))((((((((((.................---.........((..........))....(....)..............))))).)---).))). ( -24.80)
>DroGri_CAF1 352229 89 + 1
AA-AACCAG---------------CGGCGCUAAUAAAUG--UUAUAA---UCAUAAUGAGCAAAUGUUUAAACAGUAGCAAAGGGAGCAGUGCAAGGGCGGAAG---GGGUGG
..-.(((..---------------(.((.((..((((((--((....---((.....))...)))))))).......(((..(....)..))).)).)).)...---.))).. ( -16.30)
>DroSec_CAF1 247951 107 + 1
CAAAACCACUGGCAACAGUGGCUGCGCCGCAAAUAAAAGAAUAAUAA---UAAUAAUGAGCAAAUAUUUAAGCAGCCGGGAACUUAUCAGUGAAGCAGCGGCAG---UCAGGG
.....((((((....))))))(((((((((.................---.........((..........)).((.....(((....)))...)).))))).)---.))).. ( -27.20)
>DroSim_CAF1 251497 106 + 1
CAAAACCACUGGCAACAGUGGCUGCGCCGCAAAUAAAAGAAUAAUAA---UAAUAAUGAGCAAAUAUUUAAGCAGCCGGGAACUUAUCAGCGAAGCAGCGGCAG----CAGCG
......(((((....)))))((((((((((.................---.........((..........)).((.((.......)).))......))))).)----)))). ( -32.20)
>DroEre_CAF1 256925 110 + 1
GAAAACCACUGGCAACAGUGGCUACGCCGCAAAUAAAAGAAUAAUAAUAAUAAUAAUGAGCAAAUAUUUAAGCAGCCGGGAACUUAUCGGUGAAACAGUGGCAG---UCAGGG
.....((((((....))))))....(((((.............................((..........)).(((((.......)))))......)))))..---...... ( -27.40)
>DroYak_CAF1 262359 110 + 1
CAAAACCACUGGCAACAGUGGCCAUGCCGCAAAUAAAAGAAUAAUAA---UAAUAAUGAGCAAAUAUUUAAGCAGCCGGGAACUUAUCUGUGAAACGGCGGCGGCGAGCAGAG
.....((((((....))))))...((((((.................---.........((..........)).((((...((......))....)))).))))))....... ( -32.50)
>consensus
CAAAACCACUGGCAACAGUGGCUACGCCGCAAAUAAAAGAAUAAUAA___UAAUAAUGAGCAAAUAUUUAAGCAGCCGGGAACUUAUCAGUGAAACAGCGGCAG___UCAGGG
.....((((((....))))))....(((((.............................((..........)).((.((.......)).))......)))))........... (-16.81 = -17.37 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:34 2006