Locus 4258

Sequence ID 3R_DroMel_CAF1
Location 11,393,188 – 11,393,297
Length 109
Max. P 0.561031
window6912

overview

Window 2

Location 11,393,188 – 11,393,297
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.77
Mean single sequence MFE -36.44
Consensus MFE -26.46
Energy contribution -26.62
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.81
Structure conservation index 0.73
SVM decision value 0.05
SVM RNA-class probability 0.561031
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11393188 109 + 27905053
GAUUUCUGGUGGCGUUUUUUGCGCUGUGGGAAAGGACAUUUGGCUAAGCUAAUGGGUUCGACUGGAGCCGGGAAACCAU------CGAAAGAUGUUUC-----GUGUUGAGGUUGGUUCU
..(((((.(..((((.....))))..).)))))((((..(((((...))))).((.((((((((((((.((....))((------(....))))))))-----).)))))).)).)))). ( -39.10)
>DroSec_CAF1 140946 109 + 1
GAUUUCUGGUGGCGUUUUUUGCGCUGUGGGAAAGGACACUUGGCUAAGCUAAUGGGUUCGACUGGAGCCGGAAAACCAU------CGAAAGAUGUUUC-----GUGUUGAGGUCGGUUGU
..(((((.(..((((.....))))..).)))))((((..(((((...)))))...))))((((..((((((((...(((------(....))))))))-----).)))..))))...... ( -38.40)
>DroSim_CAF1 132003 109 + 1
GAUUUCUGGUGGCGUUUUUUGCGCUGUGGGAAAGGACAUUUGGCUAAGCUAAUGGGUUCGACUGGAGCCGGAAAACCAU------CGAAAGAUGUUUC-----GUGUUGAGGUUGGUUCU
..(((((.(..((((.....))))..).)))))((((..(((((...)))))......(((((..((((((((...(((------(....))))))))-----).)))..))))))))). ( -36.90)
>DroEre_CAF1 129277 118 + 1
GAUUUCUGGUGGCGUUUUUUGCGCUGUGGGAAAGGACAUUUGGCUUAGCUAAUGGCUUCGACUGGAGCCGGGA-ACCGUCGAUGUCGAAAGAUGUUUCGAGUCGUGUUGAGGUCGGUU-U
..(((((.(..((((.....))))..).))))).(((.((..((........(((((((....))))))).((-..((..((((((....)))))).))..))..))..)))))....-. ( -39.40)
>DroYak_CAF1 131843 113 + 1
GAUUUCUGGUGCCGUUUUUUGCGCUGUGGGAAAGGACAUUUGGCUAAGCUAAUGGGUUCGACUGGAGCCGGGA-ACCAU------GGAAAGAUGUUUCGUGUCGUGUUGAGGUCGGUUUU
((((((.(((((........)))))..((.(..((((((((..(((.(....(.(((((.....))))).)..-..).)------))..))))))))..).)).....))))))...... ( -28.40)
>consensus
GAUUUCUGGUGGCGUUUUUUGCGCUGUGGGAAAGGACAUUUGGCUAAGCUAAUGGGUUCGACUGGAGCCGGGAAACCAU______CGAAAGAUGUUUC_____GUGUUGAGGUCGGUUCU
..(((((.(..((((.....))))..).)))))((((..(((((...)))))...))))((((..((((((....)).........((((....)))).....).)))..))))...... (-26.46 = -26.62 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:45 2006