Locus 454

Sequence ID 3L_DroMel_CAF1
Location 1,320,947 – 1,321,067
Length 120
Max. P 0.531712
window661

overview

Window 1

Location 1,320,947 – 1,321,067
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.11
Mean single sequence MFE -51.78
Consensus MFE -32.65
Energy contribution -34.65
Covariance contribution 2.00
Combinations/Pair 1.32
Mean z-score -1.43
Structure conservation index 0.63
SVM decision value -0.00
SVM RNA-class probability 0.531712
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1320947 120 + 23771897
AGCCCUGCCAACAGGAAUGGCCAUCGGAGCCGUGCUGGAGCGAGAAGAUGCGCGGGACGCCCUCGUUCUGCGGGAGAACUUCAAGGGCCACACGAUAGCCUCGCUUCCAAAGGGCAGCGU
.((.(((((....((((.(((.((((..(((.(((....))).((((.(.(((((((((....))))))))).)....))))...)))....)))).)))....))))....))))).)) ( -45.50)
>DroVir_CAF1 2707 120 + 1
AGCGCUGCCAACGGGAAUGGCUGUGGGCGCGGUGCUGGAGCGUGAGGAUGCCCGCGAUGCGCUGGUGCUGCGCGAGAAUCUGAAGGGGCACACGAUUGCCACGCUGCCCAAGGGCAGUGU
.((((((((...(((...(((.((((((((((..(..(.(((((.((....)).).)))).)..)..))))))...((((((........)).)))).))))))).)))...)))))))) ( -57.40)
>DroGri_CAF1 1313 120 + 1
GGCGCUGCCCACGGGCAUGGCUGUCGGUGCGGUACUGGAGCGUGAGGAUGCCCGGGAUGCGCUGGUGCUGCGCGAGAAUCUAAAGGGUCACACAAUAGCCAACCUGCCUAAGGGCAGUGU
.(((((((((..((((((((((((.((((((((((..(.((((..((....))...)))).)..)))))))))..((..(....)..))...).)))))))...)))))..))))))))) ( -61.10)
>DroMoj_CAF1 2212 120 + 1
AGCGCUGCCAACGGGCAUGGCUGUGGGCGCGGUGCUGGAACGUGAGGAUGCUCGGGAUGCGUUGGUGCUGCGCGAGCAUCUUAAGGGUCACACCAUUGCAUCGCUGCCCAAAGGCAGUGU
.((((((((.((((......))))((((((((((((((...(((((((((((((.(..(((....)))..).)))))))))......)))).)))..))))))).))))...)))))))) ( -59.70)
>DroAna_CAF1 1507 120 + 1
GGCGCUGCCGACUGGAAUGGCCAUUGGAGCCGUCCUGGAGCGUGAAGAUGCCCGAGAUGCACUGGUGCUCCGUGAGAACUUCAAGGGCCACACGAUAGCCUCACUGCCCAAUGGAAGUGU
.(((((.(((..(((..(((((.((((((...((.(((((((...((.(((.......)))))..))))))).))...)))))).))))).......((......))))).))).))))) ( -40.40)
>DroPer_CAF1 1674 120 + 1
GGCUCUACCGACGGGCAUGGCCAUUGGGGCAGUCCUAGAGCGAGAGGAUGCCCGGGAUGCUCUGGUUCUGCGCGAGAACUUCCAGGGCCAUACGAUAGCCUCUCUGCCACAAGGAAGUGU
.((.((.((....((((.(((.(((((((((.((((........))))))))).....(((((((.....(....).....)))))))....)))).)))....))))....)).)).)) ( -46.60)
>consensus
AGCGCUGCCAACGGGAAUGGCCAUCGGAGCGGUGCUGGAGCGUGAGGAUGCCCGGGAUGCGCUGGUGCUGCGCGAGAACCUCAAGGGCCACACGAUAGCCUCGCUGCCCAAGGGCAGUGU
.((((((((....((((.(((.((((..((((((((((.((((..((....))...)))).))))))))))....(..((....))..)...)))).)))....))))....)))))))) (-32.65 = -34.65 +   2.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:11 2006