Locus 1967

Sequence ID X_DroMel_CAF1
Location 5,384,722 – 5,384,827
Length 105
Max. P 0.591944
window3204

overview

Window 4

Location 5,384,722 – 5,384,827
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.00
Mean single sequence MFE -30.52
Consensus MFE -20.06
Energy contribution -20.87
Covariance contribution 0.81
Combinations/Pair 1.03
Mean z-score -1.80
Structure conservation index 0.66
SVM decision value 0.12
SVM RNA-class probability 0.591944
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5384722 105 - 22224390
CAACAGGCAACAACAAAUCCGAUUUCAUCUGACAGAGCAAACAAUAAU---------------GUUGUUGCUCUGGCUGGCAAAGGAUUUCAUGGGUUUGCUUGAUUGCGAUAAUGAGUU
......((((((((((((((((..((...((.((((((((.((((...---------------)))))))))))).....))...))..))..))))))).))).))))........... ( -29.80)
>DroSec_CAF1 65917 103 - 1
CAACAGGCAACAACAAAUCCGAUUUCAUCUGGCAGAGCAAACAAUAAU---------------GUUGUUGCUCUGGCUGGCAAAGGAUUUC-UGGGUUU-CUUGAUUGCGAUAAUGAGUU
......(((((((.((((((((..((..(..(((((((((.((((...---------------))))))))))).))..).....))..))-.))))))-.))).))))........... ( -31.50)
>DroSim_CAF1 53263 103 - 1
CAACAGGCAACAACAAAUCCGAUUUCAUCUGGCAGAGCAAACAAUGAU---------------GUUGUUGCUCUGGCUGGCAAAGGAUUUC-UGGGUUU-CUUGAUUGCGAUAAUGAGUU
......(((((((.((((((((..((..(..(((((((((.((((...---------------))))))))))).))..).....))..))-.))))))-.))).))))........... ( -31.50)
>DroYak_CAF1 58856 115 - 1
CAACAGGCAA---CAAAUCCGAUUUCAUCUGGCUGGGCAAACAAUAACGUUGUUGUUGCUGCUGUUGUUGCUGUAGCUGGCAAAGGAUUUC-UGCGUUU-CUUGCUUGCGAUAAUGAGUU
..((((.(((---(((....(((...))).(((..(((((.(((((....))))))))))))).)))))))))).((.(((((..(((...-...))).-.))))).))........... ( -29.30)
>consensus
CAACAGGCAACAACAAAUCCGAUUUCAUCUGGCAGAGCAAACAAUAAU_______________GUUGUUGCUCUGGCUGGCAAAGGAUUUC_UGGGUUU_CUUGAUUGCGAUAAUGAGUU
......((((....((((((((..((..((((((((((((.((((..................))))))))))).))))).....))..))..))))))......))))........... (-20.06 = -20.87 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:06 2006