Locus 3342

Sequence ID X_DroMel_CAF1
Location 8,935,357 – 8,935,463
Length 106
Max. P 0.780917
window5473

overview

Window 3

Location 8,935,357 – 8,935,463
Length 106
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 84.17
Mean single sequence MFE -24.07
Consensus MFE -19.62
Energy contribution -19.12
Covariance contribution -0.50
Combinations/Pair 1.17
Mean z-score -1.74
Structure conservation index 0.82
SVM decision value 0.56
SVM RNA-class probability 0.780917
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8935357 106 + 22224390
CAGCCGCCUGCCAUUGUCAAGAUAGCAUUCUUGAUCUGUCGAUGAGAAUAUCAUAAUGGUGUUUUGCAAUGUCAUCUUGGCAUC---AUAUCACUUUUUCAU----UAUGCUA
..((((..((.(((((.(((((((.((((..((((...((.....))..)))).)))).)))))))))))).))...))))...---...............----....... ( -25.40)
>DroSec_CAF1 5632 106 + 1
CAGCCGCCUCCCAUUGUCAAGAUAGCAUUCUUGAUCUGUCGAUGAAAAUAUCAUAAUGGUAUUUUGCAAUGUCAUCUUGGCAUC---AUAUCACAUUUUUAU----CAUGCCA
...........(((((.(((((((.((((..((((...((...))....)))).)))).))))))))))))......((((((.---(((.........)))----.)))))) ( -22.70)
>DroSim_CAF1 5865 106 + 1
CAGCCGCCUGCCAUUGUCAAGAUAGCAUUCUUGAUCUGUCGAUGAAAAUAUCAUAAUGGUGUUUUGCAAUGUCAUCUUGGCAUC---AUAUCACUGUUUUAU----CAUGCCA
........((.(((((.(((((((.((((..((((...((...))....)))).)))).)))))))))))).))...((((((.---(((.........)))----.)))))) ( -23.70)
>DroEre_CAF1 4659 108 + 1
UCGCCGUCUGCCAUUGUCAAGAUAGCGUUCUUGAUCUGCCAAGGAAAAUAUCAUGAUGGUGAUUUGAAAUGUCAUCUUGGCAUCACCAUAUCCUCUU-----UUUAAAUACAA
........(((((..((((.((((...((((((......))))))...)))).))))((((((.......)))))).)))))...............-----........... ( -24.50)
>consensus
CAGCCGCCUGCCAUUGUCAAGAUAGCAUUCUUGAUCUGUCGAUGAAAAUAUCAUAAUGGUGUUUUGCAAUGUCAUCUUGGCAUC___AUAUCACUUUUUUAU____CAUGCCA
..............(((((((((..((((.(((......)))..((((((((.....))))))))..))))..)))))))))............................... (-19.62 = -19.12 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:58 2006