Locus 1275

Sequence ID 3R_DroMel_CAF1
Location 3,788,585 – 3,788,705
Length 120
Max. P 0.814544
window2084

overview

Window 4

Location 3,788,585 – 3,788,705
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.31
Mean single sequence MFE -44.65
Consensus MFE -31.46
Energy contribution -31.90
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -2.04
Structure conservation index 0.70
SVM decision value 0.66
SVM RNA-class probability 0.814544
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3788585 120 + 27905053
AUUGGUGCCCGGCCCGCGGAUGUGCGAUGGUGUGUGUGUGCGCCAGUUGGCUGGUGUUUGUGCGAUGUUUGCCUGUGUUUGCGUGGAAGCGGGCACCGCCAACGAAACGGAACCGAAAAU
.(((((..(((((.((((.(((..(....)..))).)))).))).((((((.(((((((((.(.((((..((....))..)))).)..))))))))))))))).....)).))))).... ( -50.40)
>DroSec_CAF1 17911 105 + 1
AUUGGU-----------GGAUGUGCGA--GUGUGUGUGUGCGCCAGUUGGCUGGUGUGUGCGAGAUGUUUGCCUGUGUUUGCGUGGAAGC--GCACCGCCAACGAAACGGAACCGAAAAU
.(((((-----------((....((((--(..(.((((..((((((....))))))..))))..)..))))).......(((((....))--)))))))))).....((....))..... ( -40.30)
>DroSim_CAF1 22311 105 + 1
AUUGGU-----------GGAUGUGCGA--GUGUGUGUGUGCACCAGUUCGCUGGUGUGUGCG--AUGUUUGCCUGUGUUUGCGUGGAAGCGGGCACCGCCAACGAAACGGAACCGAAAAU
.(((((-----------((....((((--(..(.((((..((((((....))))))..))))--)..)))))...(((((((......)))))))))))))).....((....))..... ( -42.10)
>DroEre_CAF1 8493 114 + 1
AUUGGUGCCCGGACCGCGGAUGUGCGA--GUGU--GUGUGGGCCAGUAGGUUGGUGUGUGCG--AUGUUUGCCUGUGUUUGCGUGGCAGCGGGCACCGCCAACGAAACGGAACCGAAAAU
.(((((..((((.(((((.(..(....--)..)--.))))).)).....(((((((.((((.--.((((.((((((....))).))))))).))))))))))).....)).))))).... ( -45.80)
>consensus
AUUGGU___________GGAUGUGCGA__GUGUGUGUGUGCGCCAGUUGGCUGGUGUGUGCG__AUGUUUGCCUGUGUUUGCGUGGAAGCGGGCACCGCCAACGAAACGGAACCGAAAAU
.(((((...........((.((((((..........)))))))).((((((.(((((.(((...((((..((....))..))))....))).)))))))))))........))))).... (-31.46 = -31.90 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:25 2006