Locus 2983

Sequence ID 3L_DroMel_CAF1
Location 8,561,851 – 8,561,967
Length 116
Max. P 0.804267
window4663

overview

Window 3

Location 8,561,851 – 8,561,967
Length 116
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 81.99
Mean single sequence MFE -31.82
Consensus MFE -18.35
Energy contribution -17.66
Covariance contribution -0.69
Combinations/Pair 1.42
Mean z-score -2.77
Structure conservation index 0.58
SVM decision value 0.63
SVM RNA-class probability 0.804267
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8561851 116 + 23771897
AAGAAGCUGAAGAGUCUGGCCGAGCGCCAGAAGAAACGGCUGAA---CAUUAAGAGGAUCACCCUGAAGAAGGACGAGAAAAUCGUUCUCGGCGAGCAGCAGAAGAUUAUGAAGCUAAA
....((((....(((((.((.(..((((.........((.(((.---(........).))).))....((.((((((.....))))))))))))..).))...)))))....))))... ( -33.50)
>DroVir_CAF1 13619 116 + 1
AAGAAGCUUAAGAGCUUGGCGGAGCGCCAGAAGAAGCGCCUGAA---CAUCAAACGUAUUACGCUCAAGAAGGACGAGAAGAUUGUCCUGGGUGAGCAGCAGAAGAUUAUAAAGUUAAA
...(((((....))))).((((.((((........))))))...---...............(((((...(((((((.....)))))))...))))).))................... ( -32.10)
>DroGri_CAF1 12712 116 + 1
AAGAAGCUGAAGAGUUUGGCUGAUCGCCAGAAGAAGCGCUUGAA---CAUUAAGCGUAUUAUGCUCAAGAAGGACGAGAAAAUUGUGUUGGGCGAGCAGCAAAAGAUUAUGAAGCUGAA
....((((....(((((.((((.(((((.......((((((((.---..)))))))).............((.((((.....)))).)).))))).))))...)))))....))))... ( -34.20)
>DroWil_CAF1 16579 116 + 1
AAGAAGUUAAAGAGCCUGGCUGAGCGCCAAAAGAAACGUUUGAA---UAUCAAACGAGUUACACUCAAAAAGGACGAGAAAAUUGUCCUUGGCGAGCAGCAAAAAAUUAUGAAAUUGAA
..................((((..((((.........(((((..---...)))))(((.....)))...((((((((.....))))))))))))..))))................... ( -33.40)
>DroYak_CAF1 13406 119 + 1
AAGAAGCUGAAGAGCUUGGCCGAGCGCCAGAAGAAGCGGCUGAACAACAUUAAGAGGAUCACCCUGAAAAAGGAUGACAAAAUCGUUCUCGGCGAGCAACAGAAGAUCAUGAAGCUAAA
.....(((((.(((((..((((..(.......)...))))..)..........((.(.(((.(((.....))).))))....))))))))))).(((..((........))..)))... ( -29.80)
>DroAna_CAF1 13279 116 + 1
AAGAAGCUAAAGAGCUUGGCCGAGCGCCAGAAGAAGCGUCUGAA---CAUUAAGAGGAUCACCCUGAAGAAGGACGAGAAGAUCGUCCUGGGAGAGCAACAGAAGAUCAUGCGACUGAA
...(((((....)))))(((.....)))......(((((.(((.---..((.......((.(((......(((((((.....)))))))))).)).......))..))).))).))... ( -27.94)
>consensus
AAGAAGCUGAAGAGCUUGGCCGAGCGCCAGAAGAAGCGCCUGAA___CAUUAAGAGGAUCACCCUCAAGAAGGACGAGAAAAUCGUCCUGGGCGAGCAGCAGAAGAUUAUGAAGCUAAA
...(((((....))))).((.(..((((.........((.(((...............))).))......(((((((.....))))))).))))..).))................... (-18.35 = -17.66 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:45 2006