Locus 1297

Sequence ID 2R_DroMel_CAF1
Location 5,056,198 – 5,056,309
Length 111
Max. P 0.652146
window2254

overview

Window 4

Location 5,056,198 – 5,056,309
Length 111
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 88.54
Mean single sequence MFE -28.92
Consensus MFE -22.08
Energy contribution -21.95
Covariance contribution -0.13
Combinations/Pair 1.21
Mean z-score -1.62
Structure conservation index 0.76
SVM decision value 0.25
SVM RNA-class probability 0.652146
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5056198 111 + 20766785
UGGCUGGCGGAAUCGAACAAUGCUGAAAAUGUAGAAGGCGAGAAUGCAAAAAAUCGCCACCCCCAUGUAGGUGGUGGCUAAAAUGUUAAACGGAGCCCCAAAAGGCAAUUA
...((((((...(((.....(((.......))).....)))...)))........((((((.((.....)).))))))............))).(((......)))..... ( -29.40)
>DroSec_CAF1 10701 110 + 1
UGGCUG-CGGAAUCGAACAAUGCUGAAAAUGUAAAAUGCGAGAAUGCAAAAAAUUGCCGCCCCCUUGUAGGUGGUGGCUAAAAUGUUAAACGGAGCCCCAAAAGGCAAUUA
....((-((...(((.....(((.......))).....)))...))))...((((((((((........)))((.((((....((.....)).))))))....))))))). ( -28.10)
>DroSim_CAF1 7728 110 + 1
UGGCUG-CGGAAUCGAACAAUGCUGAAAAUGUAAAAGGCGAGAAUGCAAAAAAUCGCCGCCCCCAUGUAGGUGGUGGCUAAAAUGUUAAACGGAGCCCCAAAAGGCAAUUA
.((((.-((......((((.................(((((............)))))(((.((((....)))).))).....))))...)).)))).............. ( -28.80)
>DroEre_CAF1 14873 99 + 1
UGGCCG-CCCAAUCGAACAAUGCUGAAAAUGUAAAA--------UGCGAAAAAUCGCCGCCUCC--GUUGGCGGUGGCCAAAAUGUUAAACGGAGCCCCG-AAGGCAAUUA
((((((-((...........................--------.((((....)))).(((...--...)))))))))))...((((...(((....)))-..)))).... ( -29.40)
>consensus
UGGCUG_CGGAAUCGAACAAUGCUGAAAAUGUAAAAGGCGAGAAUGCAAAAAAUCGCCGCCCCCAUGUAGGUGGUGGCUAAAAUGUUAAACGGAGCCCCAAAAGGCAAUUA
((((((.((...(((.....(((.......))).....)))...))))......(((((((........)))))))))))..............(((......)))..... (-22.08 = -21.95 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:33 2006