Locus 6484

Sequence ID 3L_DroMel_CAF1
Location 17,253,297 – 17,253,415
Length 118
Max. P 0.586545
window10456

overview

Window 6

Location 17,253,297 – 17,253,415
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.26
Mean single sequence MFE -24.16
Consensus MFE -20.08
Energy contribution -19.96
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -1.36
Structure conservation index 0.83
SVM decision value 0.11
SVM RNA-class probability 0.586545
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17253297 118 + 23771897
GAGAAGAAAGUGGA--GAAAAUAAGACCAGGGGCUGAUAAGGUGGUGGAGCAGCUCAAAAGUCGGUGGCAAAAGUAUUCAGAAAGAAGUGCAGCUGCAAAAAAGUUUACAUUUCCAGAUG
..........((((--((........(((..(.((....)).)..))).((((((.....((.....))....(((((........))))))))))).............)))))).... ( -23.50)
>DroSec_CAF1 137085 118 + 1
AAGAGGAAAAUGGA--GAAAAUAAGACCAGGGGCUGAUAAGGUGGUGGAGCAGCUCAAAAGUCGCUGGCAAAAGUAUUCAGAAAGAAGUGCAGCUGCAAAAAAGUUUACAUUUCCAGAUG
..........((((--((........(((..(.((....)).)..))).((((((((....((.((((.........))))...))..)).)))))).............)))))).... ( -25.70)
>DroSim_CAF1 131926 118 + 1
AAGAGGAAAAUGGA--GAAAAUAAGACCAGGGGGUGAUAAGGUGGUGGAGCAGCUCAAAAGUCGCUGGCAAAAGUAUUCAGAAAGAAGUGCAGCUGCAAAAAAGUUUACAUUUCCAGAUG
..........(((.--..........)))((..(((.((((.(..(...((((((((....((.((((.........))))...))..)).))))))..)..).)))))))..))..... ( -24.90)
>DroEre_CAF1 140243 115 + 1
---UACAAAAUGGG--GAAAAUAAGACCGGGGGCUGAUAAGGUGGUGGAGCAGCUCAAAAGUCGGUGGCAAAAGUAUUCAGAAAGAAGUGCAGCUGCAAAAAAGUUUACAUUUCCAGAUG
---.......(((.--.(......(((...((((((.((......))...))))))....))).(..((....(((((........))))).))..).............)..))).... ( -22.60)
>DroYak_CAF1 144033 117 + 1
---UACAAAAUGGAGAGAAAAUAAGACCAGGGGCUGAUAAGGUGGUGGAGCAGCUCAAAAGUCGGUGGCAAAAGUAUUCAGAAAGAAGUGCAGCUGCAAAAAAGUUUACAUUUCCAGAUG
---.......((((((..((((....(((..(.((....)).)..))).((((((.....((.....))....(((((........)))))))))))......))))...)))))).... ( -24.10)
>consensus
_AGAAGAAAAUGGA__GAAAAUAAGACCAGGGGCUGAUAAGGUGGUGGAGCAGCUCAAAAGUCGGUGGCAAAAGUAUUCAGAAAGAAGUGCAGCUGCAAAAAAGUUUACAUUUCCAGAUG
..........((((..(.((((....(((..(.((....)).)..))).((((((.....((.....))....(((((........)))))))))))......)))).)...)))).... (-20.08 = -19.96 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:47 2006