Locus 3893

Sequence ID X_DroMel_CAF1
Location 10,395,883 – 10,395,982
Length 99
Max. P 0.857726
window6393

overview

Window 3

Location 10,395,883 – 10,395,982
Length 99
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 77.52
Mean single sequence MFE -20.23
Consensus MFE -11.55
Energy contribution -13.55
Covariance contribution 2.00
Combinations/Pair 1.35
Mean z-score -2.14
Structure conservation index 0.57
SVM decision value 0.81
SVM RNA-class probability 0.857726
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10395883 99 - 22224390
UCCGGGAG--CCUCGAAACAAUUUUCGGACAUUUUCCACCCAAAAAA---AAGAA-AGGAAACAACAAGCGCUUUUUAAUUAAUUUACAAAUUCUGGUU---CCUUGU
...(((((--((..(((.........(((.....))).......(((---(((..-.(....)........))))))..............))).))))---)))... ( -16.00)
>DroSec_CAF1 39857 102 - 1
UCCGGGAUCUCCUCAAAACAACUUUUGGACAUUUUCCAGCCAAAAAA---AAAAAUAGGAAACAGCAAGCAGUUUUUAAUUAAUUUGCAAAUUCUUGUU---GCUCGU
..((((...((((.........((((((.(........)))))))..---......))))..(((((((.(((((.(((.....))).)))))))))))---))))). ( -19.73)
>DroEre_CAF1 44589 106 - 1
UCUGGGAG--CCUCAAAACAAUUUUUGGACAUUUCCCCCCCCAAAAAAAAAACCAAAAAAGGCAGCAAGCUGCUUUUAAUUAAUUUACAAAUUCUUGUUGUUCCUUGU
...(((((--(..(((.....(((((((............)))))))..........((((((((....)))))))).................)))..))))))... ( -23.10)
>DroYak_CAF1 39575 101 - 1
UCUGGGAA--GCUCGUAACAAUUUUUGGACAUUUUCCC-----AAAAAAAAAGAAAAAACAACAGCAAGCAGUUUUUAAUUAAUUUACAAACUCUUGUUGUUCCUUGC
...((((.--...........(((((((........))-----))))).............((((((((.(((((.(((.....))).)))))))))))))))))... ( -22.10)
>consensus
UCCGGGAG__CCUCAAAACAAUUUUUGGACAUUUUCCACCCAAAAAA___AAGAAAAAAAAACAGCAAGCAGUUUUUAAUUAAUUUACAAAUUCUUGUU___CCUUGU
...(((((....((((((....))))))....)))))...................(((.(((((((((.(((((.(((.....))).)))))))))))))).))).. (-11.55 = -13.55 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:09 2006