Locus 2488

Sequence ID 2R_DroMel_CAF1
Location 8,904,650 – 8,904,742
Length 92
Max. P 0.872113
window4106

overview

Window 6

Location 8,904,650 – 8,904,742
Length 92
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 73.81
Mean single sequence MFE -28.96
Consensus MFE -16.54
Energy contribution -15.60
Covariance contribution -0.94
Combinations/Pair 1.26
Mean z-score -1.94
Structure conservation index 0.57
SVM decision value 0.88
SVM RNA-class probability 0.872113
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8904650 92 - 20766785
CAGCCUACGGAGACCAGCACAGGAUAC---CGGCCACUUGGCA-CCCUCCUCCACUUUCUG--------CUCCUGCUGCUGGUCCUAGUUCAGUUCUCCGUCUC
......((((((((((((((((((...---..(((....))).-........((.....))--------.))))).))))))))((.....))...)))))... ( -28.10)
>DroSec_CAF1 149470 92 - 1
CAGCCUACGGAGACCAGCACAGGAUAC---CGGCCACUUGGCA-GCCUCCUCCAUCUCCUG--------CUUAUGCUGCUGGUCCUGAUUCCGCUCUCCGUCUC
......(((((((.(.(..(((((..(---((((..(..((((-(.............)))--------))...)..))))))))))...).).)))))))... ( -28.42)
>DroSim_CAF1 149638 92 - 1
CAGCCUACGGAGACCAGCACAGGAUAC---CGGCCACUUGGCA-GCCUCCUCCAUCUCCUG--------CUUAUGCUGCUGGUCCUGAUUCCGCUCUCCGUCUC
......(((((((.(.(..(((((..(---((((..(..((((-(.............)))--------))...)..))))))))))...).).)))))))... ( -28.42)
>DroAna_CAF1 149651 100 - 1
CAGCCUACGGAAACUGCCAAAGGACACCGCCGGCCACUUGGCCAUUCUGUGG---CCCGUGGCAGCAUUUUCAUUAAGCCAGCUCUGCCUCAG-UCUCUGUCUC
......(((((.((((....(((.((..((.((((((..((((((...))))---)).))))).((...........))).))..))))))))-).)))))... ( -30.90)
>consensus
CAGCCUACGGAGACCAGCACAGGAUAC___CGGCCACUUGGCA_GCCUCCUCCAUCUCCUG________CUCAUGCUGCUGGUCCUGAUUCAGCUCUCCGUCUC
......((((((((((((((((........).(((....)))...............................)).))))))))............)))))... (-16.54 = -15.60 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:16 2006