Locus 5398

Sequence ID 3R_DroMel_CAF1
Location 14,184,967 – 14,185,068
Length 101
Max. P 0.679278
window8791

overview

Window 1

Location 14,184,967 – 14,185,068
Length 101
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 81.86
Mean single sequence MFE -16.98
Consensus MFE -9.20
Energy contribution -9.82
Covariance contribution 0.63
Combinations/Pair 1.05
Mean z-score -2.39
Structure conservation index 0.54
SVM decision value 0.30
SVM RNA-class probability 0.679278
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14184967 101 + 27905053
AUAUCCACUCAAAACCAUACCAAAUAUACACGUUUAUUUUGGUUAACAAUUAAAGUAAACUGAAAAAGUAGCCUAUAAAAAAGGCU----AAAUGGUAAACUUUA
.................(((((......((.((((((((((((.....))))))))))))))......((((((.......)))))----)..)))))....... ( -21.50)
>DroSec_CAF1 177130 99 + 1
AG--GCACUCAAAACCCUAUCAAAUAUACAAGUUUAUUUUGGUUAACAAUUAAAGUAAACUGAAAU----GCCCAUAAAAAAGGCUAUUUAAAUGGUAAACUUUA
..--.............(((((........(((((((((((((.....))))))))))))).((((----(((.........))).))))...)))))....... ( -15.10)
>DroSim_CAF1 62415 99 + 1
AG--GCACUCAAAACCCUAUUAAAUAUACAAGUUUAUUUUGGUUAACAAUUAAAGUAAACUGAAAU----GCCCAUAAAAAAUGCUAUUUAAAUGGUAAACUUUA
.(--(((.((.......(((.....)))..(((((((((((((.....)))))))))))))))..)----))).........((((((....))))))....... ( -15.50)
>DroYak_CAF1 40294 96 + 1
AU--CCACUCAAA-CCAUUUGUAAUGUACACGUUUCAUUUGGCUAAUAGUUAAAGUAAACUGAAAU------CUGUGUAAAAAGCUAUUUAAAUGGUAAACUAUA
..--........(-(((((((.(((((((((((((((((((((.....))))))......))))))------..)))))......))))))))))))........ ( -15.80)
>consensus
AG__CCACUCAAAACCAUAUCAAAUAUACAAGUUUAUUUUGGUUAACAAUUAAAGUAAACUGAAAU____GCCCAUAAAAAAGGCUAUUUAAAUGGUAAACUUUA
............................((.((((((((((((.....)))))))))))))).....................(((((....)))))........ ( -9.20 =  -9.82 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:45 2006