Locus 141

Sequence ID 3R_DroMel_CAF1
Location 744,774 – 744,874
Length 100
Max. P 0.783421
window231

overview

Window 1

Location 744,774 – 744,874
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 88.00
Mean single sequence MFE -33.58
Consensus MFE -24.65
Energy contribution -26.28
Covariance contribution 1.63
Combinations/Pair 1.11
Mean z-score -1.95
Structure conservation index 0.73
SVM decision value 0.56
SVM RNA-class probability 0.783421
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 744774 100 + 27905053
CAGGCACUUUAGGCUGGUUAAUGGAUUCUGCCAUAGUUGACGCUGUUUGCUCAUUCUGCCGGUGUUUCUUGCGCCACUUCCUGGCUCCAUUAGCCCGGCC
...........((((((((((((((....(((((((.(((.((.....)))))..)))..(((((.....)))))......)))))))))))).)))))) ( -35.30)
>DroSec_CAF1 1185 95 + 1
CAGGCACUUUAGGCUGGUUAAUGGGUUCGGCCGUAGUUGGCGCUGUUUGCUCAUUCUGCCGGUGUUUCUUGCACCACUUCCUGGCUCCAUUAGC-----C
..(((.(....))))(((((((((....((((((((.(((.((.....)))))..)))).(((((.....))))).......))))))))))))-----) ( -32.20)
>DroSim_CAF1 1178 99 + 1
CAGGCACUUUAGGCUGGUUAAUGGGUUCGGCCGUAGU-GGCGCUGUUUGCUCAUUCUGCCGGUGUUUCUUGCACCACUUCCUGGCUCCAUUAGCCCGGCC
...........((((((((((((((..((((.(.(((-((.((.....)))))))).)))(((((.....))))).......)..)))))))).)))))) ( -38.10)
>DroEre_CAF1 1006 94 + 1
CAGACACUUUGGGCUGGUUAAUGGAUUUG-----AGUUCUCGCUGUUUGCUCAUUCUGCCGGUGUUUU-UGCGCCACUUCCUGGCUCCACUAGCCCGGCC
........((((((((((....(((..((-----(((.(.....)...)))))....((((((((...-.))))).......)))))))))))))))).. ( -28.71)
>consensus
CAGGCACUUUAGGCUGGUUAAUGGAUUCGGCCGUAGUUGGCGCUGUUUGCUCAUUCUGCCGGUGUUUCUUGCACCACUUCCUGGCUCCAUUAGCCCGGCC
...........((((((((((((((....((((.(((....((.....))..........(((((.....))))))))...))))))))))))).))))) (-24.65 = -26.28 +   1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:16 2006