Locus 3204

Sequence ID 3R_DroMel_CAF1
Location 8,512,232 – 8,512,322
Length 90
Max. P 0.850236
window5189

overview

Window 9

Location 8,512,232 – 8,512,322
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 75.61
Mean single sequence MFE -26.72
Consensus MFE -15.33
Energy contribution -17.23
Covariance contribution 1.90
Combinations/Pair 1.19
Mean z-score -1.78
Structure conservation index 0.57
SVM decision value 0.79
SVM RNA-class probability 0.850236
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8512232 90 - 27905053
AGCGAUCCUCCUCCGACCGA---ACGGCAGCCAGAUGCACUCAUCUAGGGCUAAGGCUAGAGCUAAGCCAAGACUGGCUGCCAGUUCAGUUCC
..............(((.((---((((((((((((((....)))))..((((..(((....))).))))......))))))).)))).))).. ( -33.10)
>DroSec_CAF1 3222 90 - 1
AGCGAUCCUCCUCCGAACGA---ACGGCAGCCAGAUGCACUCAUCUAGGGCUAAGGCUAGAGCUAAGCCAAGACUGGCUGCCAGUUCAGUUCC
..............((((((---((((((((((((((....)))))..((((..(((....))).))))......))))))).)))).)))). ( -35.30)
>DroSim_CAF1 3194 90 - 1
AGCGAUCCUCCUCCGACCGA---ACGGCAGCCAGAUGCACUCAUCUAGGGCUAAGGCUAGAGCUAAGCCAAGACUGGCUGCCAGUUCAGUUCC
..............(((.((---((((((((((((((....)))))..((((..(((....))).))))......))))))).)))).))).. ( -33.10)
>DroEre_CAF1 3283 86 - 1
AGCGAUCCUCCUCC----AA---ACGGCAGCUAGAUGCAUUCAUCUGGGGCUAAGGCUAGAGCUAAGCUAAGACUGGCUGCCAGUUCAGUUCC
..............----..---..(((((((((.........(((..((((..(((....))).)))).))))))))))))........... ( -24.10)
>DroYak_CAF1 3304 74 - 1
AGCGAUCCUCCGCC----AA---ACGGCAGCUAGAUGCAUUUAUC------------UAGAGCUAAGCUAAGACUGGCUGCCAGUUCAGUUCC
.(((......))).----..---..(((((((((.........((------------(..(((...))).))))))))))))........... ( -20.30)
>DroAna_CAF1 3187 73 - 1
AGCGAUCCUCCUCCGACG-AGUUAAGGAAAA--------AAAAAAUAAAGCUAAAGCCAGAGCU------AGAGCGGCAGCUA-----GUUCC
(((..((((.(((....)-))...))))...--------..........(((..(((....)))------..)))....))).-----..... ( -14.40)
>consensus
AGCGAUCCUCCUCCGACCGA___ACGGCAGCCAGAUGCACUCAUCUAGGGCUAAGGCUAGAGCUAAGCCAAGACUGGCUGCCAGUUCAGUUCC
.........................(((((((((..((.....(((((........))))).....)).....)))))))))........... (-15.33 = -17.23 +   1.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:37 2006