Locus 3214

Sequence ID 3L_DroMel_CAF1
Location 9,378,258 – 9,378,372
Length 114
Max. P 0.686686
window5004

overview

Window 4

Location 9,378,258 – 9,378,372
Length 114
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 87.85
Mean single sequence MFE -30.63
Consensus MFE -21.60
Energy contribution -22.27
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.51
Structure conservation index 0.71
SVM decision value 0.32
SVM RNA-class probability 0.686686
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9378258 114 + 23771897
AACCAAUGAAUUCCGAUUGGUCAAAA------AAGUAUCUUUAAGAUACUCGAAACUGACAGCCAACGAGCGCUGAAAAUGCCACUUGAAUCGUUUCGAAAAGGGUUCUGUGGCAGUCAA
.((((((........)))))).....------.((((((.....))))))......((((((((.....).))).....((((((..(((((.((.....)).))))).)))))))))). ( -30.80)
>DroSim_CAF1 4413 119 + 1
AACCAGCGUAUUCCG-UUGGUCAAAAAAAACAAAGUAUCUUUAAGAUACUCGAAACUGACAGCCAACGAGCGCUGAAAAUGCCACUUGAAUCGUUUCGAAAAGGGUUCUGUGGCAGGCAA
...((((((....((-(((((............((((((.....))))))...........))))))).))))))....((((((..(((((.((.....)).))))).))))))..... ( -38.50)
>DroYak_CAF1 4437 114 + 1
AACCAACAAACUCCGUUCUCCAAAAA------AAGUAUCUUUAAGAUACUCGAAACUGACAGCAAACGAGCGCUGAAAAUGCCACUUGAAUCGAUUCGAAAAGGGUUCUGUGGAAGGCAA
..............((..((((....------.((((((.....)))))).((......((((........)))).....(((.(((...(((...))).))))))))..))))..)).. ( -22.60)
>consensus
AACCAACGAAUUCCG_UUGGUCAAAA______AAGUAUCUUUAAGAUACUCGAAACUGACAGCCAACGAGCGCUGAAAAUGCCACUUGAAUCGUUUCGAAAAGGGUUCUGUGGCAGGCAA
.................................((((((.....)))))).........((((........))))....((((((..(((((.((.....)).))))).))))))..... (-21.60 = -22.27 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:13 2006