Locus 5404

Sequence ID X_DroMel_CAF1
Location 14,060,179 – 14,060,269
Length 90
Max. P 0.851984
window8769

overview

Window 9

Location 14,060,179 – 14,060,269
Length 90
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 76.74
Mean single sequence MFE -29.50
Consensus MFE -17.76
Energy contribution -17.72
Covariance contribution -0.04
Combinations/Pair 1.07
Mean z-score -1.89
Structure conservation index 0.60
SVM decision value 0.79
SVM RNA-class probability 0.851984
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14060179 90 + 22224390
ACAA-----------------------------GCUCACAGUCUGGCAACCUUUCACCUCGUCGACGAUCCGGCAACGCUAGAAAAACGCGAGCCGCCUGAAAAGCAAGGCAAAUUACA
....-----------------------------((((.(..((((((...........(((....)))...(....))))))).....).)))).((((........))))........ ( -23.60)
>DroSec_CAF1 1535 90 + 1
AUAA-----------------------------GCGCACAGUCUGGCAACCUUUCACAUCGUCGACGAUCCGGCAACGCUAGAAAAACGCGAGCCGCCUGAAAAGCAAGGCAAAUUACA
....-----------------------------(((.....((((((..........((((....))))..(....)))))))....)))..(((..((....))...)))........ ( -23.80)
>DroSim_CAF1 1538 90 + 1
AUAA-----------------------------GCUCACCGUCUGGCAACCUUUCACAUCGUCGACGAUCCGGCAACGCUAGAAAAACGCGAGCCGCCUGAAAAGCAAGGCAAAUUACA
....-----------------------------((((.(..((((((..........((((....))))..(....))))))).....).)))).((((........))))........ ( -24.40)
>DroEre_CAF1 1421 111 + 1
AGUGG--------GAACAUAUCGCUGGCAGCCAGCUGACAGUCCGGCAACGUUUUGCAUCGUCGACCGUCUGGCAACGCUAGAAAAACGCGAGCCGCCUGAAAAGCAAGGCAAAUUACA
.(((.--------...)))...(((((...)))))((.(((..((....))..)))))(((.((....((((((...))))))....)))))(((..((....))...)))........ ( -33.10)
>DroYak_CAF1 1434 119 + 1
AAAAGCUUAGUGUAGACCUAUCGUUGGCAGCCAGCUGCCAGUCCGGCAACGCUUCGCAUCGGCGAGGGUCUGGCAACGCUAGAAAAACGCGAGCCGCCUGAAAAGCAAGGCAAAUUACA
....((((.((((....(((.(((((.((((((((((((.....))))..)))((((....)))).)).))).))))).)))....)))))))).((((........))))........ ( -42.60)
>consensus
AUAA_____________________________GCUCACAGUCUGGCAACCUUUCACAUCGUCGACGAUCCGGCAACGCUAGAAAAACGCGAGCCGCCUGAAAAGCAAGGCAAAUUACA
............................................(((.............((((......))))..(((.........))).)))((((........))))........ (-17.76 = -17.72 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:08 2006