Locus 2428

Sequence ID 3R_DroMel_CAF1
Location 6,767,760 – 6,767,864
Length 104
Max. P 0.661056
window3960

overview

Window 0

Location 6,767,760 – 6,767,864
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.03
Mean single sequence MFE -26.54
Consensus MFE -22.40
Energy contribution -22.76
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.39
Structure conservation index 0.84
SVM decision value 0.27
SVM RNA-class probability 0.661056
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6767760 104 + 27905053
CCCAGGGCGCUGGCACAUUGAUAAAUUAAUGAUUGCCAAGCUGAAAAAGUCGGUUGAAGCGAAG-CAAAGGCGAG---------------UUAUAUAGCAAAUGAGGUGCAGACGAUGGG
((((..(((((((((((((((....))))))..))))..((((.(.((.(((.((...((...)-)..)).))).---------------)).).))))......)))))......)))) ( -28.00)
>DroSec_CAF1 31982 103 + 1
CCCAGGGCGCUGGCACAUUGAUAAAUUAAUGAUUGCCAAGCUGGAAAAGUCGGUUGAAGCGAAG-GAAAGGCGAG----------------UAUAUAGCAAAUGAGGUGCAGACGAUGGG
((((..(((((((((((((((....))))))..))))..((((....(.(((.((....(....-)..)).))).----------------)...))))......)))))......)))) ( -28.70)
>DroSim_CAF1 36483 103 + 1
CCCAGGGCGCUGGCACAUUGAUAAAUUAAUGAUUGCCAAGCUGGAAAAGUCGGUUGAAGCGAAG-GAAAGGCGAG----------------UAUAUAGCAAAUGAGGUGCAGACGAUGGG
((((..(((((((((((((((....))))))..))))..((((....(.(((.((....(....-)..)).))).----------------)...))))......)))))......)))) ( -28.70)
>DroEre_CAF1 16768 103 + 1
CCCUGGGCGCUGGCACAUUGAUAAAUUAAUGAUUGCCAAGCUGGAAAAGUGGGUUAAAGCGGAG-GAAAGGCGA----------------AUAUAUAGCAAAUGAGGUGCAGACGAUGGG
(((((.(((((.((.((((((....)))))).(((((..(((.....)))..((....))....-....)))))----------------.......))......)))))...))..))) ( -21.20)
>DroYak_CAF1 28796 120 + 1
CCCAGGGCGCUGGCACAUUGAUAAAUUAAUGAUUGCCAAGCUGGAAAAGUGGGUUAAAGCGGAGCGAAAGGCAAGAAUAUACAUACAUACAUAUAUAGCAAAUGAGGUGCAGACGAUGGG
((((..(((((((((((((((....))))))..))))..((((.....(((.((.....(....(....)....).....))...))).......))))......)))))......)))) ( -26.10)
>consensus
CCCAGGGCGCUGGCACAUUGAUAAAUUAAUGAUUGCCAAGCUGGAAAAGUCGGUUGAAGCGAAG_GAAAGGCGAG________________UAUAUAGCAAAUGAGGUGCAGACGAUGGG
((((..(((((((((((((((....))))))..))))..(((.......(((.......))).......))).................................)))))......)))) (-22.40 = -22.76 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:46 2006