Locus 485

Sequence ID 3R_DroMel_CAF1
Location 1,809,381 – 1,809,475
Length 94
Max. P 0.986405
window783

overview

Window 3

Location 1,809,381 – 1,809,475
Length 94
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 82.38
Mean single sequence MFE -28.93
Consensus MFE -16.70
Energy contribution -17.95
Covariance contribution 1.25
Combinations/Pair 1.18
Mean z-score -3.59
Structure conservation index 0.58
SVM decision value 2.04
SVM RNA-class probability 0.986405
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1809381 94 + 27905053
AUCGGACUCUUGCAGCUAGC--------UUCUGGCU---GGCU--CGGUUCGGCUCGGCUCCGAAAGUGAAAAAUGAAAAAUAAAAAAUUGCUGAAAAAAUAAGUCA
.(((((((...(.(((((((--------.....)))---))))--)))))))).((((((((....).))....(....)..........)))))............ ( -22.60)
>DroSec_CAF1 120068 92 + 1
AUCGGACUCUUGCAGCUAGCUAGCUAGCUGCUGGCU---GGCU--CGG----------UUUCGAAAGUGAAAAAUGAAAAAUAAAAAAUAGCUGCAAAAAUAAGUCA
....((((.((((((((((((((((((...))))))---)))(--((.----------((((....).)))...)))...........))))))))).....)))). ( -31.10)
>DroSim_CAF1 123103 92 + 1
AUCGGACUCUUGCAGCUAGCUAGCUAGCUGCUGGCU---GGCU--CGG----------UUUCGAAAGUGAAAAAUGAAAAAUAAAAAAUAGCUGCAAAAAUAAGUCA
....((((.((((((((((((((((((...))))))---)))(--((.----------((((....).)))...)))...........))))))))).....)))). ( -31.10)
>DroEre_CAF1 116177 96 + 1
AUCGGGCUCUUGCAGCUAGCU-GCUGGCUGUUGGCUGCUGGCUGCUGG----------CUCCGAAAAUGAAAAAUGAAAAAUAAAAAAUAGCUGAAAAAACAAGUCA
.(((((((...(((((((((.-((..(...)..)).))))))))).))----------).))))........................................... ( -30.90)
>consensus
AUCGGACUCUUGCAGCUAGCU_GCUAGCUGCUGGCU___GGCU__CGG__________CUCCGAAAGUGAAAAAUGAAAAAUAAAAAAUAGCUGAAAAAAUAAGUCA
....((((.(((((((((((((((.....))))))..........(((............))).........................))))))))).....)))). (-16.70 = -17.95 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:20 2006