Locus 6703

Sequence ID 3L_DroMel_CAF1
Location 17,877,360 – 17,877,476
Length 116
Max. P 0.581076
window10907

overview

Window 7

Location 17,877,360 – 17,877,476
Length 116
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 81.68
Mean single sequence MFE -34.13
Consensus MFE -25.22
Energy contribution -26.44
Covariance contribution 1.23
Combinations/Pair 1.30
Mean z-score -1.34
Structure conservation index 0.74
SVM decision value 0.10
SVM RNA-class probability 0.581076
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17877360 116 + 23771897
CUCCUGCCAGCGUUGAAGGAUCUCCCGGAGUUCAUCUAUUGUCCACAGUUUCUGGCGGGUCCACAAUUGACGCAGUGUCUCAUCCGCGGGCAGAUCUAUGGGC-AGUUUUUAUAUCA
...(((((.((((..(.((((((.((((((.......((((....)))))))))).))))))....)..))))..(((((.......)))))........)))-))........... ( -34.81)
>DroVir_CAF1 3871 110 + 1
CUCCUGCCACCGUUUAAUAAUUGUCUGUAGCUCAUCCACUGUCCACAACUCUUCACUAGUCCACAGCUUUCGCAGCCGCUCGUCAGCCGGCAAAUCUGUAAGACAGU-------CUA
...((((.((.(((....))).))..)))).......((((((.(((..................((....)).((((((....)).)))).....)))..))))))-------... ( -18.10)
>DroSec_CAF1 3872 116 + 1
CUCCUGCCAGCGUUGAAGGAUCUCCCGGAGAUCAUCUAUUGUCCACAGUUUCUGGCGGGUCCACAAUUGACGCAGUGUCUCAUCCGCUGGCAGAUCUAUAGGU-AGUUUUUGUAUUA
...(((((((((.(((.((((((.((((((((...............)))))))).))))))......(((.....))))))..)))))))))...((((((.-....))))))... ( -39.16)
>DroSim_CAF1 3966 116 + 1
CUCCUGCCAGCGUUGAAGGAUCUUCCGGAGAUCAUCUAUUGUCCACAGUUUCUGGCGGGUCCACAAUUGACGCAGUGUCUCAUCCGCUGGCAGAUCUAUAGGU-AGUUUUGUUAUCA
...(((((((((.(((.((((((.((((((((...............)))))))).))))))......(((.....))))))..))))))))).......(((-((.....))))). ( -40.16)
>DroEre_CAF1 4034 116 + 1
CCCCUGCCAGCGUUGAAGGAUCUCCCGGAGAUCAUCUAUUGUCCACAGUCUUUGGCGGCUCCACAAUUGACGCAGUGCCUCAUCCGCUGGCAGAUCUAUGGGC-AGUUUUUAUGUCA
...((((((((((..(((((((((...))))))....((((....)))))))..))(((.................)))......)))))))).......(((-(.......)))). ( -37.23)
>DroYak_CAF1 3947 111 + 1
CUCCUGCCAGCGUUGAAGGAUCCCCCGGAGAUCAUCUACUGUCCACAGUUUUUGGCGAGUCCACAAUUGACGCAGUGCCUCAUCCGCUGGCAGAUCUAUGGGC-AGUUAC-----CA
...(((((((((.(((..(((((....).))))....((((....))))....((((.(((.......)))....)))))))..))))))))).....(((..-.....)-----)) ( -35.30)
>consensus
CUCCUGCCAGCGUUGAAGGAUCUCCCGGAGAUCAUCUAUUGUCCACAGUUUCUGGCGGGUCCACAAUUGACGCAGUGUCUCAUCCGCUGGCAGAUCUAUAGGC_AGUUUUU_UAUCA
...(((((((((.(((.((((((.((((((((...............)))))))).))))))...((((...))))...)))..)))))))))........................ (-25.22 = -26.44 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:00 2006