Locus 5207

Sequence ID X_DroMel_CAF1
Location 13,616,876 – 13,616,989
Length 113
Max. P 0.617538
window8441

overview

Window 1

Location 13,616,876 – 13,616,989
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 97.70
Mean single sequence MFE -41.14
Consensus MFE -38.72
Energy contribution -38.16
Covariance contribution -0.56
Combinations/Pair 1.06
Mean z-score -1.20
Structure conservation index 0.94
SVM decision value 0.17
SVM RNA-class probability 0.617538
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13616876 113 + 22224390
GCCGGAGUGCCCUGUGUCCGCUACACGGAUCACUACUUUGUGACCACACUGAUCUACAGCAUGCUGCUGGGUUUCCUCGGUAUGGAUCGCUUCUGUCUCGGUCAAACGGGCAC
......((((((..((.(((....(((((((((......))))(((.(((((....((((.....)))).......))))).)))......)))))..))).))...)))))) ( -38.30)
>DroSec_CAF1 2748 113 + 1
GCCGGAGUGCCCUGUGUCCGCUACACGGAUCACUACUUUGUGACCACACUGAUCUACAGCAUGCUGCUGGGUUUCCUCGGUAUGGAUCGCUUCUGUCUCGGGCAAACGGGCAC
(((.(..(((((.(((((((.....)))).)))......(((((((.(((((....((((.....)))).......))))).))).)))).........)))))..).))).. ( -43.20)
>DroSim_CAF1 2736 113 + 1
GCCGGAGUGCCCUGUGUCCGCUACACGGAUCACUACUUUGUGACCACGCUGAUCUACAGCAUGCUGCUGGGUUUCCUCGGUAUGGAUCGCUUCUGUCUCGGGCAAACGGGCAC
(((.(..(((((.(((((((.....)))).)))......(((((((..((((....((((.....)))).......))))..))).)))).........)))))..).))).. ( -44.00)
>DroEre_CAF1 2702 113 + 1
GCCGGAGUGCCCUGUGUCCGCUACACGGAUCACUACUUUGUGACCACCCUGAUCUACAGCAUGCUGCUGGGUUUCCUCGGGAUGGAUCGCUUCUGUCUCGGCCAAACGGGCAC
......((((((.((((.....))))((.((((......))))))...........((((.....)))).((((..((((((((((.....))))))))))..)))))))))) ( -40.00)
>DroYak_CAF1 2649 113 + 1
GCCGGAGUGCCCUGUGUCCGCUACACGGAUCACUACUUUGUGACCACCCUGAUCUACAGCAUGCUGCUGGGAUUCCUCGGGAUGGAUCGCUUCUGUCUCGGCCAAACGGGCAC
......((((((..((.(((....(((((((((......))))(((.((((((((.((((.....)))))))....))))).)))......)))))..))).))...)))))) ( -40.20)
>consensus
GCCGGAGUGCCCUGUGUCCGCUACACGGAUCACUACUUUGUGACCACACUGAUCUACAGCAUGCUGCUGGGUUUCCUCGGUAUGGAUCGCUUCUGUCUCGGCCAAACGGGCAC
......((((((..((.(((....(((((((((......))))(((.(((((....((((.....)))).......))))).)))......)))))..))).))...)))))) (-38.72 = -38.16 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:17 2006