Locus 3278

Sequence ID 3L_DroMel_CAF1
Location 9,615,600 – 9,615,705
Length 105
Max. P 0.720048
window5095

overview

Window 5

Location 9,615,600 – 9,615,705
Length 105
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 80.00
Mean single sequence MFE -44.35
Consensus MFE -33.16
Energy contribution -32.00
Covariance contribution -1.16
Combinations/Pair 1.42
Mean z-score -1.35
Structure conservation index 0.75
SVM decision value 0.40
SVM RNA-class probability 0.720048
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9615600 105 + 23771897
GAAAGUCCGUGUGCGGAGGUGACUCCGGUGGCCCCCUGGUUACACACGACAAUGCUCGUCUCGUCGGUGUGAUCACCUUUGCCUCCGUCAGCUGCCACGACGGAC
....((((((((((((((....))))((.(((....(((((((((.((((............))))))))))))).....))).)).......).))).)))))) ( -45.40)
>DroPse_CAF1 9637 105 + 1
GACGGUCCGUCUGCGGUGGCGACUCUGGUGGCCCUCUGGUCACGCAGGACAACCCAAUGCUGGUGGGCGUGAUAACCUUUGCCUCCGGCAACUGUAAGAGUGGAC
....(((((((((((((((....((((((((((....)))))).)))).....))..((((((.(((((..........)))))))))))))))).))).))))) ( -41.50)
>DroEre_CAF1 10746 105 + 1
GAAAGUCCGUGUGCGGAGGUGACUCCGGUGGCCCCCUGGUCACACACGACAAUGCUCGUCUCGUCGGUGUGAUCACCUUUGCUUCCGGCAGCUGCCACGACGGAC
....((((((...(((((....)))))(((((....(((((((((.((((............)))))))))))))...((((.....))))..))))).)))))) ( -49.00)
>DroYak_CAF1 11269 105 + 1
GAAGGUCCGUGUGCGGAGGCGACUCCGGUGGCCCCCUGGUUACACACGACAAUGCUCGUCUCGUCGGUGUGAUCACCUUUUCUUCCGUCAGCUGCCACGACGGAC
....((((((...(((((....)))))(((((....(((((((((.((((............)))))))))))))...........(....).))))).)))))) ( -40.70)
>DroAna_CAF1 24337 105 + 1
GCCACUCCGUGUGCGGAGGCGACUCCGGCGGUCCCUUGGUCACUCUGGACAACCCACGCCUGGUGGGAGUGAUCACCUUCGCCUCCGUCGGCUGCCACGGUGGUC
((((..(((((.((((...((((...(((((.....((((((((((((....))(((.....)))))))))))))...)))))...)))).))))))))))))). ( -46.40)
>DroPer_CAF1 9643 105 + 1
GACGGUCCGUCUGCGGUGGCGACUCUGGUGGCCCUCUGGUCACGCAGGACAGCCCAAUGCUGGUGGGCGUGAUAACCUUUGCCUCCACCUCCUGCAAGAAUGGAC
....((((((((.(((.(....).)))((((((....))))))((((((.(((.....)))((((((.(..(......)..).)))))))))))).)).)))))) ( -43.10)
>consensus
GAAAGUCCGUGUGCGGAGGCGACUCCGGUGGCCCCCUGGUCACACACGACAACCCACGUCUCGUCGGUGUGAUCACCUUUGCCUCCGUCAGCUGCCACGACGGAC
....((((((((((((((....))))((.(((....(((((((((......(((.......)))..))))))))).....))).)).......)).))).))))) (-33.16 = -32.00 +  -1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:41 2006