Locus 6259

Sequence ID 2L_DroMel_CAF1
Location 17,382,218 – 17,382,312
Length 94
Max. P 0.953768
window10002

overview

Window 2

Location 17,382,218 – 17,382,312
Length 94
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 74.52
Mean single sequence MFE -15.36
Consensus MFE -0.80
Energy contribution -1.40
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.09
Structure conservation index 0.05
SVM decision value 1.44
SVM RNA-class probability 0.953768
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17382218 94 + 22407834
UCAAUAGU-----AUAGCCCACCACUAUACUAUCACCAAGUACUCAUGAAGGUUAAUAUUAAAAAAUGUACCCACAUUCAA----AUGGGAAAACAGAAACCC
...(((((-----((((.......))))))))).................((((.(((((....))))).((((.......----.))))........)))). ( -15.50)
>DroSec_CAF1 660 91 + 1
UCAAUAGU-----AUAACCG---ACUAUACUAUCAACAAAUACUCAUGAAGGGUAGUAUUAAAAAACGUGCCCACAUUCAA----GUGGGAAAACAGAAGCCC
...(((((-----(((....---..)))))))).................((((.((........))((.(((((......----)))))...))....)))) ( -19.60)
>DroSim_CAF1 3728 91 + 1
UCAAUAGU-----AUAACCC---ACUUUACUAUCAACAAGUACUCAUGAAGAGUAAUAUUAAAAAACGUGCCCACAUUCAA----GUGGGAAAACAGAAACCC
...(((((-----(......---....)))))).......(((((.....)))))............((.(((((......----)))))...))........ ( -16.90)
>DroEre_CAF1 3680 93 + 1
CAACUAAUUACAAACAACCG---ACUAUAGUUUCACAAAGUGCUCAUG-------AUAUUGAAAAACUUGCACAAAAUGAAAAUUGUGGCAAAACAGAAACCC
....................---......(((((...((((..(((..-------....)))...))))((.((.(((....))).))))......))))).. ( -12.30)
>DroYak_CAF1 3544 100 + 1
UAACUAGUUACAAAUAACCG---AUAAUAUUUUCACCAAGUGCUCAUGAACGUUGAUAUUGAAAAACAUGCCCAAAAUGGAAAUUGUGGCAAAACAGAAACCC
......(((((((......(---(........)).(((..((..((((....((......))....))))..))...)))...)))))))............. ( -12.50)
>consensus
UCAAUAGU_____AUAACCG___ACUAUACUAUCACCAAGUACUCAUGAAGGGUAAUAUUAAAAAACGUGCCCACAUUCAA____GUGGGAAAACAGAAACCC
......................................................................((((............))))............. ( -0.80 =  -1.40 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:36 2006