Locus 2212

Sequence ID 2R_DroMel_CAF1
Location 8,141,556 – 8,141,657
Length 101
Max. P 0.975113
window3645

overview

Window 5

Location 8,141,556 – 8,141,657
Length 101
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 78.48
Mean single sequence MFE -23.37
Consensus MFE -15.52
Energy contribution -15.58
Covariance contribution 0.06
Combinations/Pair 1.20
Mean z-score -2.29
Structure conservation index 0.66
SVM decision value 1.74
SVM RNA-class probability 0.975113
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8141556 101 + 20766785
AUUAAAA-------------------GAGUGAACUAAGUGUAAGGUAAUGGGAAGAGAUAAACAAAUUCUCUUAAAAAUCGCUCUUAGUGACUUGAGUAGGGCGAAUUAAGUAAGCUCAG
.......-------------------((((..(((.(((.............((((((.........)))))).....(((((((.............)))))))))).)))..)))).. ( -21.42)
>DroSec_CAF1 27989 100 + 1
AUUUAAA-------------------GAGUCAACCAAGUACAAGGGAAUGGGAAAAGAUAAA-AAAUUCUCUUAAAAAUCGCUCUUAGUGACUUGAGUAGGGCGAAUUAAGUAAGCUCAG
.......-------------------((((..((.......((((((((.............-..)))))))).....(((((((.............))))))).....))..)))).. ( -19.68)
>DroSim_CAF1 18845 100 + 1
AUUAAAA-------------------GAGUCAACCAAGUACAAGAGAAUGGGAAAAGAUAAA-AAAUUCUCUUAAAAAUCGCUCUUAGUGACUUGAGUAGGGCGAAUUAAGUAAGUUCAG
.......-------------------..(((.(((((((..((((((((.............-..))))))))......(((.....)))))))).))..)))(((((.....))))).. ( -18.76)
>DroEre_CAF1 17772 119 + 1
AUUAAAGAGGUUUCCACUGUAUAAAGCAGUGGAGUCAGUAUAAGAGAAUUCGAAAAUGUUAC-AAAUUCUCUUAGAAACUGCUUUUAGUGAUUUGAGUAGGGCGGAUUAAGUAAGCUCAG
......(((.((((((((((.....))))))))(((....((((((((((.(.........)-.))))))))))....((((((..(....)..))))))))).........)).))).. ( -33.60)
>consensus
AUUAAAA___________________GAGUCAACCAAGUACAAGAGAAUGGGAAAAGAUAAA_AAAUUCUCUUAAAAAUCGCUCUUAGUGACUUGAGUAGGGCGAAUUAAGUAAGCUCAG
..........................((((..(((.(((..((((((((................)))))))).....(((((((.............)))))))))).)))..)))).. (-15.52 = -15.58 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:57 2006