Locus 6540

Sequence ID 2L_DroMel_CAF1
Location 18,419,024 – 18,419,129
Length 105
Max. P 0.843645
window10440

overview

Window 0

Location 18,419,024 – 18,419,129
Length 105
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 81.54
Mean single sequence MFE -29.25
Consensus MFE -18.45
Energy contribution -19.15
Covariance contribution 0.70
Combinations/Pair 1.29
Mean z-score -2.49
Structure conservation index 0.63
SVM decision value 0.76
SVM RNA-class probability 0.843645
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18419024 105 - 22407834
------GGAAAUUGCAACUAUGGAGCUGGCUAAUUUGCUCAUCGCCUCAGUGCCAAAUCAAAGAAACAUUUUUCUU---UGGAUUUCUGGCGUGUUUUUAUUGCAACAUUUCCA
------(((((((((((((..((.(.((((......)).)).).))..)))(((((((((((((((....))))))---).))))..))))..........))))..)))))). ( -29.60)
>DroSim_CAF1 271611 105 - 1
------GGAAAUUGCAACUAUGGAGCUGGCUAAUUUGCUCAUCGCCUCAGCGCCAAAUCAAAGAAACAUUUUUCUU---UGGAUUUCUGGCGUGUUUUUAUUGCAACAUUUCCA
------(((((((((((...((..((((((......)).))..))..))(((((((((((((((((....))))))---).))))..)))))).......)))))..)))))). ( -32.40)
>DroEre_CAF1 258247 105 - 1
------GGAAAUUGCAACUAUAGAGCUGGCUAAUUUGCUCAUCGCCUCAGCGUCGAAUCAAAGAAACAUUUUUCUU---CGGAUUUCUGGCGUGUUUUUAUUGCAACAUUUCCA
------(((((((((((.....((((..........)))).........((((((((((.((((((....))))))---..)))))..))))).......)))))..)))))). ( -27.20)
>DroYak_CAF1 271711 105 - 1
------GGAAAUUGCAACUAUGGAGCUGGCUAAUUUGCUCAUCGCUUCAGCGUCGAAUCAAAGAAACAUUUUUCUU---CGGAUUUCUGGCGUGUUUUUAUUGCAACAUUUCCA
------(((((((((((...((((((((((......)).))..))))))((((((((((.((((((....))))))---..)))))..))))).......)))))..)))))). ( -31.20)
>DroMoj_CAF1 405136 92 - 1
------GGCAGCUCGAACUAUGGAGCA-GCUAAUUUGCGCGUUGC-----UGGCAAAUCAAAGCAACAUUUUGCUAGCU----UUU-----GUG-UUUUAUUGGGUCAUUUGUG
------(((.((((........)))).-.(((((..(((((..((-----(((((((............))))))))).----..)-----)))-)...))))))))....... ( -29.40)
>DroAna_CAF1 237626 109 - 1
AGGGAUGAAAAUUGCAACUAUGGAGCUG-CUAAUUUGCUCAUCGCAUCGGCGUCAAAUCAAAGAAACAUUUUUGC----UGGAUUUCUGGCGUGUUUUUAUUGCACCAUUUUCG
......(((((((((((...((..((((-......(((.....))).))))..))......((((((((....((----..(....)..)))))))))).)))))..)))))). ( -25.70)
>consensus
______GGAAAUUGCAACUAUGGAGCUGGCUAAUUUGCUCAUCGCCUCAGCGUCAAAUCAAAGAAACAUUUUUCUU___UGGAUUUCUGGCGUGUUUUUAUUGCAACAUUUCCA
......(((((((((((.....((((..........)))).........((((((((((.((((((....)))))).....)))))..))))).......)))))..)))))). (-18.45 = -19.15 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:46 2006