Locus 3278

Sequence ID 2R_DroMel_CAF1
Location 11,199,957 – 11,200,077
Length 120
Max. P 0.598111
window5374

overview

Window 4

Location 11,199,957 – 11,200,077
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.75
Mean single sequence MFE -40.48
Consensus MFE -31.95
Energy contribution -31.79
Covariance contribution -0.16
Combinations/Pair 1.16
Mean z-score -1.48
Structure conservation index 0.79
SVM decision value 0.13
SVM RNA-class probability 0.598111
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11199957 120 + 20766785
CCAUAGCUGACAAUACCUAGCUGAACGGUGCGGGUUAUGCGGCCAUUUGACAUUUUCCUCGACAGCGGACCGCCUGAGUCACCGCUACAGGUGUCCGCCCGCCAUUGUCCAGCGCAGAAC
.....(((((((((((((.(((....)))..))))...((((....((((........))))..((((((.((((((((....))).))))))))))))))).))))).))))....... ( -41.70)
>DroSec_CAF1 114413 120 + 1
CCAUAGCUGACAAUACCUAGCUGAACGGUGCGGGUUAUGCGGCCAUUUGACAUUUUACUCGACAGCGGACCACCUGAGUCACCGCUACAGGUGUCCGCCCGCCACUGUCCAGCGCAGAAU
................((.((((.(((((((((((......((...((((........))))..))((((.((((((((....))).)))))))))))))).)))))).))))..))... ( -42.40)
>DroSim_CAF1 113971 120 + 1
CCAUAGCUGACAAUACCUAGCUGAACGGUGCGGGUUAUGCGGCCAUUUGACAUUUUACUCGACAGCGGGCCGCCUGAGUCACCGCUACAGGUGUCCGCCCGCCACUGUCCAGCGCAGAAU
................((.((((.(((((((((((...((((((..((((........)))).....))))))..(.(.((((......)))).))))))).)))))).))))..))... ( -44.30)
>DroEre_CAF1 115953 120 + 1
CCAUAGCUAACAAUUCCUAACUGAACGGUGCGGGUCAUUUGGCCAUUUGACAUUUUCCUUAGCAGCGGACCGCCUGAGUCACCGCUACAGGUAUCCACUAGCGCUUGUCCCGCGCAGAAC
...........................(((((((.((...(((.....((.....))....((((.(((..((((((((....))).))))).))).)).))))))).)))))))..... ( -32.70)
>DroYak_CAF1 114065 120 + 1
CCAUAGCUAACAAUUCCUAACUGAACGGUGCGGGUCACUUGACCAUUUGACAUUUUCCUAAGCAGCGGACCGCCUGAGUCACCGCUACAGGUGUCCGCUCGCGAUUGUCCCGCGCAGAAC
....................(((..(((..((((((....)))).................(((((((((.((((((((....))).)))))))))))).))...))..)))..)))... ( -41.30)
>consensus
CCAUAGCUGACAAUACCUAGCUGAACGGUGCGGGUUAUGCGGCCAUUUGACAUUUUCCUCGACAGCGGACCGCCUGAGUCACCGCUACAGGUGUCCGCCCGCCAUUGUCCAGCGCAGAAC
...((((((........))))))....((((.((((....))))....((((............((((((.((((((((....))).))))))))))).......))))..))))..... (-31.95 = -31.79 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:42 2006