Locus 6192

Sequence ID 2R_DroMel_CAF1
Location 19,489,236 – 19,489,341
Length 105
Max. P 0.870334
window9915

overview

Window 5

Location 19,489,236 – 19,489,341
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.09
Mean single sequence MFE -22.80
Consensus MFE -5.28
Energy contribution -5.48
Covariance contribution 0.20
Combinations/Pair 1.42
Mean z-score -1.88
Structure conservation index 0.23
SVM decision value 0.87
SVM RNA-class probability 0.870334
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19489236 105 + 20766785
CACCUGCGCCUCGAAAUCAAGAACGCACUAUCUGCCUAACUGAAAAGUCCAAAUUUUAGCAAGUGAGUUCCCCACACACUCACACUU---------------ACACUCACGGCACUCAUA
....((((..((........)).)))).....((((...((((((........))))))...((((((.........))))))....---------------........))))...... ( -18.70)
>DroSec_CAF1 1069 120 + 1
CACCUUCGCGUCCAAAUCAAGAACGCACUAUCUGCCUAACUGAAAAGUUAAAAUUUUAGCAAGUGAGUUCACCACACACUCACACUCGCACUCGCACUCACGACACUCAUGGCACUCAUA
.......((((.(.......).))))......(((((((((....)))))............((((((.........))))))....((....))...............))))...... ( -21.70)
>DroSim_CAF1 1063 114 + 1
CACCUUCGCGUUGAAAUCAAGAACGCACUAUGUGCUUAACUGAAAAGUUAAAAUUUUAGCAAGUGAGUUCACCACACACUCACACUC------GCACUCAUGACACUCAUGGCACUCAUA
.......((((((((((.......((((...))))((((((....)))))).))))))))..((((((.........))))))....------))..(((((.....)))))........ ( -27.00)
>DroEre_CAF1 1445 108 + 1
CACCUCGGCGUGGAAAUCAAGAACGCACUAUCUACAUAACUGGAAAGUCGAAAU-UUAGCAAAUGAGCGUAGUAUUC-----CAGUA------CGACUCACCAUGUGUAUAGCAGCCAUA
......((((((...........))).(((..((((((..(((..((((.....-...((......))...((((..-----..)))------)))))..))))))))))))..)))... ( -23.40)
>DroYak_CAF1 1080 108 + 1
CACCUGGGCGGGGAAAUCAAGAACGCACUAUCUACCUAACUGGAAAUUCGAAAU-UUAGCAAAUGAGCGUUGUAUUC-----GAGUG------CGACUCACCACACUCACAGCACUCAUA
...(..(..((((....).(((........))).)))..)..)...........-.......(((((.(((((....-----(((((------.(......).)))))))))).))))). ( -23.20)
>consensus
CACCUGCGCGUCGAAAUCAAGAACGCACUAUCUGCCUAACUGAAAAGUCAAAAUUUUAGCAAGUGAGUUCACCACACACUCACACUC______CCACUCACCACACUCAUGGCACUCAUA
.......((((...........))))................................((..((((((....................................)))))).))....... ( -5.28 =  -5.48 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:06 2006