Locus 6505

Sequence ID 2R_DroMel_CAF1
Location 20,328,667 – 20,328,771
Length 104
Max. P 0.505921
window10360

overview

Window 0

Location 20,328,667 – 20,328,771
Length 104
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 87.05
Mean single sequence MFE -39.58
Consensus MFE -28.06
Energy contribution -28.70
Covariance contribution 0.64
Combinations/Pair 1.19
Mean z-score -1.62
Structure conservation index 0.71
SVM decision value -0.05
SVM RNA-class probability 0.505921
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20328667 104 + 20766785
GGCGGCUGUGCAAUAAAUUCUCCUGGGCCAGGGCCUGG------GCCUGCGACUGGGUUUUGGUUUGGGUAUGGAGCCCAACAAAAGCCAGACCCAUUGUUAGUCACCCC
((.(((((.(((((.......((..(((....)))..)------).......((((.(((((...(((((.....))))).))))).))))....)))))))))).)).. ( -41.50)
>DroSec_CAF1 45314 98 + 1
GGCGGCUGUGUAAUAAAUUCUCCUGGGCCAGGGCCUGG------GCCU------GAGUUUGGGUUUGGGUAUGGAGCCCAACAAAAGCCAGACCCAUUGUUAGUCACCCC
((.(((((......((((((.((..(((....)))..)------)...------))))))((((((((.(.((........))..).)))))))).....))))).)).. ( -37.20)
>DroSim_CAF1 46819 98 + 1
GGCGGCUGUGUAAUAAAUUCUCCUGGGCCAGGGCCUGG------GCCU------GGGUUUGGGUUUGGGUAUGGAGCCCAACGAAAGCCAGACCCAUUGUUAGUCACCCC
((.(((((.............((..(((....)))..)------)..(------((((((((..((((((.....))))))(....))))))))))....))))).)).. ( -42.30)
>DroEre_CAF1 48089 104 + 1
GGCGGCUGUGUAAUAAAUUCUCCUGGGCCUGGGCCUGG------GCCUGCGACUGGGUUUGGGUUGGGGCAUGGAGUCCAACAAAAGCCAGACCCAUUGUUAGCCACCCC
((.(((((.............((..(((....)))..)------)...((((.(((((((((.((.((((.....)))).....)).)))))))))))))))))).)).. ( -45.10)
>DroYak_CAF1 46111 110 + 1
GGCGGCUGUGUAAUAAAUUCUCCUGGGUCUGCGACUGGCUUUGGGUUUGGGUAUGAGUUUGGGUUUAGGUAUGGAGACCAACAAAAGUCAGACCCAUUGUUAGUCACCCC
........................((((....(((((((..(((((((((.(....((...(((((........))))).))...).)))))))))..))))))))))). ( -31.80)
>consensus
GGCGGCUGUGUAAUAAAUUCUCCUGGGCCAGGGCCUGG______GCCUG_G__UGGGUUUGGGUUUGGGUAUGGAGCCCAACAAAAGCCAGACCCAUUGUUAGUCACCCC
((.(((((..............(..(((....)))..)................((((((((.(((((((.....)))))....)).)))))))).....))))).)).. (-28.06 = -28.70 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:28 2006