Locus 4606

Sequence ID 3L_DroMel_CAF1
Location 13,142,376 – 13,142,488
Length 112
Max. P 0.601169
window7224

overview

Window 4

Location 13,142,376 – 13,142,488
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.03
Mean single sequence MFE -26.24
Consensus MFE -19.96
Energy contribution -19.60
Covariance contribution -0.36
Combinations/Pair 1.09
Mean z-score -1.62
Structure conservation index 0.76
SVM decision value 0.14
SVM RNA-class probability 0.601169
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13142376 112 - 23771897
GGGCAAGACAACGAACUUUUGAAGCAUAAAUCAACUCGAU--------ACUGGCUACAACUUUGUUUUGGUUUAUGCUUUUUGCCCAGUUUGUGUUUUUUUUGUUUUUUGUUUGUUAUGA
((((((((..(((((((...((((((((((((((..(((.--------..((....))...)))..))))))))))))))......))))))).....)))))))).............. ( -27.50)
>DroSec_CAF1 130068 102 - 1
GGGCAAGGCAAGGAACUUUUGGAGCAUAAAUCAACUGGAU--------ACUGGCUACAACUUUGUUUUGGUUUAUGCUUUUUGCCCAGUUUGUGUUU----------UUGUUUGUUAUGA
(((((((.((((.....))))(((((((((((((...(((--------(..(.......)..))))))))))))))))))))))))...........----------............. ( -24.80)
>DroSim_CAF1 129969 102 - 1
GGGCAAGGCAACGAACUUUUGGAGCAUAAAUCAACUGGAU--------ACUGGCUACAACUUUGUUUUGGUUUAUGCUUUUUGCCCAGUUUGUGUUU----------UUGUUUGUUAUGA
(((((((....)........((((((((((((((...(((--------(..(.......)..))))))))))))))))))))))))...........----------............. ( -26.20)
>DroEre_CAF1 126960 110 - 1
AGGCAAGGCAACGAACUUUCGGAGCAUAAAUCAACUGGAUACUGGGAUACUGGCUACAACUUUGUUUUGGUUUAUGCUUUUUGCCCAGUUUGUGUUU----------UUGUUUGUUAUGA
.........(((((((....((((((((((((.....)))((((((.....(((...((((.......))))...))).....))))))))))))))----------).))))))).... ( -27.10)
>DroYak_CAF1 131403 102 - 1
AGGCAAGGCAACGAACUUUUGGAGCAUAAAUCAACUGGAU--------ACUGGCUACAACUUUGUUUUGGUUUAUGCUUUUUGCCCAGUUUGUGUUU----------UUGUUUGUUAUGA
((((((((..(((((((...((((((((((((((...(((--------(..(.......)..))))))))))))))))))......)))))))..))----------))))))....... ( -25.60)
>consensus
GGGCAAGGCAACGAACUUUUGGAGCAUAAAUCAACUGGAU________ACUGGCUACAACUUUGUUUUGGUUUAUGCUUUUUGCCCAGUUUGUGUUU__________UUGUUUGUUAUGA
((((((((((.((((((...(((((((((((((((..(...........)..)..(((....))).))))))))))))))......))))))))))...........))))))....... (-19.96 = -19.60 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:15 2006