Locus 6359

Sequence ID 2R_DroMel_CAF1
Location 19,939,434 – 19,939,527
Length 93
Max. P 0.576849
window10159

overview

Window 9

Location 19,939,434 – 19,939,527
Length 93
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 72.57
Mean single sequence MFE -34.57
Consensus MFE -19.41
Energy contribution -21.70
Covariance contribution 2.29
Combinations/Pair 1.12
Mean z-score -1.41
Structure conservation index 0.56
SVM decision value 0.09
SVM RNA-class probability 0.576849
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19939434 93 + 20766785
GC-------UUGGCUUUAAUCAUGAGCUAGUUACUGCCGGAUUU------------------CGCCGGUGACGGCCUUCGAUGGGUGAUCUCGGUCACCGGCAUGAAGCCGGAGUCCC
..-------(((((((.......)))))))........((((((------------------(((((....))))........((((((....))))))(((.....)))))))))). ( -38.00)
>DroSec_CAF1 22582 93 + 1
GU-------UUGGCUUUAAUCAUAAGCUAGUUAUUGCCGGAUUU------------------CGCCGGCGACGGCCUUCGGUGGGUGAUCUCGGUCACCGGCAUGAAGCCGGAGUCCC
..-------..(((..((((.........))))..)))((((((------------------(((((....))))(((((((.((((((....)))))).)).)))))..))))))). ( -40.00)
>DroSim_CAF1 22907 93 + 1
GU-------UUGGCUUUAAUCAUGAGCUAGUUACUGACGGAUUU------------------CGCCGGCGACGGCCUUCGAUGGGUGAUCUCGGUCACCGGCAUGAAUCCGGAGUCCC
..-------(((((((.......)))))))..(((..(((((((------------------.((((((....))).......((((((....)))))))))..))))))).)))... ( -34.10)
>DroEre_CAF1 21581 93 + 1
GU-------AUGGCUUUAAUCACGAGCUAGCUGCUGUCGGCUUU------------------CGCCGGCGACGGCCUUCGAUGGGUGAUCUCGGUCACCGGCAUGAAGCCGGAGUCCC
..-------.((((((((..((((((...((((.(((((((...------------------.))))))).)))).)))).))((((((....))))))....))))))))....... ( -39.20)
>DroYak_CAF1 20120 72 + 1
GU-------AUGGCCUUAAUCGUGAGCUAUUUA---------------------------------------GGCCUUCGAUGGGUGAUCUCGGUCACCGGCAUGAAGCCGGAGUCAC
..-------..(((((.((((....)..))).)---------------------------------------))))...(((.((((((....))))))(((.....)))...))).. ( -25.30)
>DroAna_CAF1 20605 118 + 1
GGCAGUGAAACGGCUUUAAUUAUGAGCUAUUUUCUUUUUGAAUUUACUUCCGCUAGUGCGGGUGCGGGUGUGGGUCUUCGAUUGGUCAGUUCGGACACGGGCAUAAAACCGGAGUCGC
((.((((((..(((((.......)))))...(((.....))))))))).))......((((.(.(((.....(..(.......)..).(((((....)))))......))).).)))) ( -30.80)
>consensus
GU_______AUGGCUUUAAUCAUGAGCUAGUUACUGCCGGAUUU__________________CGCCGGCGACGGCCUUCGAUGGGUGAUCUCGGUCACCGGCAUGAAGCCGGAGUCCC
.........(((((((.......))))))).................................((((....))))((((....((((((....))))))(((.....))))))).... (-19.41 = -21.70 +   2.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:08 2006