Locus 5390

Sequence ID 3L_DroMel_CAF1
Location 14,806,084 – 14,806,203
Length 119
Max. P 0.570104
window8531

overview

Window 1

Location 14,806,084 – 14,806,203
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 94.45
Mean single sequence MFE -21.73
Consensus MFE -20.68
Energy contribution -20.52
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.05
Structure conservation index 0.95
SVM decision value 0.07
SVM RNA-class probability 0.570104
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14806084 119 + 23771897
GGCAAGCGUAAUCGCCAGCAACACUCCCACACACACACACACACAUACUCAGCGUGGUAAAAAAUGCAACAAAAUCGGAUUAAAAAGUGCUCACGGUUUGAGCAACCGAGCAAAAGACC
.((..(((....)))..(((......((((.(...................).)))).......))).......((((.........((((((.....)))))).))))))........ ( -20.73)
>DroSec_CAF1 41395 113 + 1
GGCAAGCGUAAUCGCCAGCAACACUC------ACACACACACACAUACUCAGCAUGGUAAAAAAUGCAACAAAAUCGGAUUAAAAAGUGCUCACGGUUUGAGCAACCGAGCAAAAGACC
(((..........))).((.......------...................((((........)))).......((((.........((((((.....)))))).))))))........ ( -20.60)
>DroSim_CAF1 34274 113 + 1
GGCAAGCGUAAUCGCCAGCAACACUC------ACACACACACACAUACUCAGCAUGGUAAAAAAUGCAACAAAAUCGGAUUAAAAAGUGCUCACGGUUUGAGCAACCGAGCAAAAGACC
(((..........))).((.......------...................((((........)))).......((((.........((((((.....)))))).))))))........ ( -20.60)
>DroEre_CAF1 40753 109 + 1
GGCAAGCGUAAUCGCCAGCAACACUC----------ACACACACAUACGCAGCAUGGUAAAAAAUGCAACAAAAUCGGAUUAAAAAGUGCUCACGGUUUGAGCAACCGAGCAAAAGGCC
(((..(((....)))...........----------............((.((((........)))).......((((.........((((((.....)))))).)))))).....))) ( -23.80)
>DroYak_CAF1 44209 119 + 1
GGCAAGCGUAAUCGCCAGCAACACUCGCACACACACACACACACAUACUCAGCAUGGUAAAAAAUGCAACAAAAUCGGAUUAAAAAGUGCUCACGGUUUGAGCAACCGAGCAAAAGACC
.((..(((....)))..)).......((.......................((((........)))).......((((.........((((((.....)))))).))))))........ ( -22.90)
>consensus
GGCAAGCGUAAUCGCCAGCAACACUC______ACACACACACACAUACUCAGCAUGGUAAAAAAUGCAACAAAAUCGGAUUAAAAAGUGCUCACGGUUUGAGCAACCGAGCAAAAGACC
(((..........))).((................................((((........)))).......((((.........((((((.....)))))).))))))........ (-20.68 = -20.52 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:10 2006