Locus 5808

Sequence ID 3R_DroMel_CAF1
Location 15,179,177 – 15,179,267
Length 90
Max. P 0.860756
window9518

overview

Window 8

Location 15,179,177 – 15,179,267
Length 90
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 82.09
Mean single sequence MFE -26.67
Consensus MFE -20.13
Energy contribution -22.20
Covariance contribution 2.07
Combinations/Pair 1.04
Mean z-score -2.26
Structure conservation index 0.75
SVM decision value 0.83
SVM RNA-class probability 0.860756
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15179177 90 + 27905053
GGUUGAGCUGAAUUCAGUUCGCUUCGAUGACCAGUUGGCUGGAAGCUCUCGGCUAACACCUGAAAAUGGCAGCUUACCGAA-AA-------------AUAAAUA
(((.((((((..(((((.(((...)))......(((((((((......)))))))))..))))).....)))))))))...-..-------------....... ( -26.90)
>DroSec_CAF1 102449 81 + 1
GGUUGAGCUGAAUUCAGUUCGCUUCGAUGGCCAGUUGGC---------UCGGCUAACACCUGAAAAUUGCAGCUUACCGAA-AA-------------AUAAAUA
(((.((((((..(((((...(((.....)))..((((((---------...))))))..))))).....)))))))))...-..-------------....... ( -23.50)
>DroSim_CAF1 105070 90 + 1
GGUUGAGCUGAAUUCAGUUCGCUUCGAUGGCCAGUUGGCUGGAAGCUCUCGGCUAACACCUGAAAAUUGCAGCUUACCGAA-AA-------------AUAAAUA
(((.((((((..(((((...(((.....)))..(((((((((......)))))))))..))))).....)))))))))...-..-------------....... ( -29.30)
>DroEre_CAF1 100911 90 + 1
GGUUGAGCUGAAUUCAGUUCCCUGCGUUGGCCAGUUGGCUGGAAGCUCUCGGCUAACACCUGAAAAUUGCAGCUUACCGAA-AA-------------AUAAAUA
(((.((((((..(((((...((......))...(((((((((......)))))))))..))))).....)))))))))...-..-------------....... ( -28.10)
>DroYak_CAF1 107102 71 + 1
GGUUGAGCUGAAUUU---------CGAUGGCCAGUUGCCUG----------GCUAACACCUGAAAAUUGCAGCUUACCAAA-AA-------------GUAAAUA
(((.((((((..(((---------((.(((((((....)))----------)))).....)))))....)))))))))...-..-------------....... ( -22.40)
>DroAna_CAF1 98847 104 + 1
GGUUGAGCUGAAUUCAGUUCGCUUGGAUGGCCAGUUGGCUGGAAGCUCUCGGCUAACACCUGAAAAUUGCAGCUUACCCGAAAAAGGAGAACGGUUUAUAAAUA
((.(((((((..(((((...(((.....)))..(((((((((......)))))))))..))))).....))))))).))......................... ( -29.80)
>consensus
GGUUGAGCUGAAUUCAGUUCGCUUCGAUGGCCAGUUGGCUGGAAGCUCUCGGCUAACACCUGAAAAUUGCAGCUUACCGAA_AA_____________AUAAAUA
(((.((((((..(((((...(((.....)))..(((((((((......)))))))))..))))).....))))))))).......................... (-20.13 = -22.20 +   2.07)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:19 2006