Locus 10117

Sequence ID 3R_DroMel_CAF1
Location 27,126,074 – 27,126,168
Length 94
Max. P 0.758838
window16102

overview

Window 2

Location 27,126,074 – 27,126,168
Length 94
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 91.39
Mean single sequence MFE -18.47
Consensus MFE -15.43
Energy contribution -15.67
Covariance contribution 0.24
Combinations/Pair 1.06
Mean z-score -1.47
Structure conservation index 0.84
SVM decision value 0.50
SVM RNA-class probability 0.758838
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27126074 94 + 27905053
--CGCCAGCCCGAAGUCCAAGACCCAGACAUCUAGACGGUGGACAGGCUUCAAACACU-------ACACAGAAUUUGCUGGCCAAAACCAACAUAACAACAAU
--.((((((((...(((((....(.((....)).)....))))).)).........((-------....)).....))))))..................... ( -18.00)
>DroSec_CAF1 27922 94 + 1
--CGCCAGCCCGAAGUCCAAGACCCAGACAUCUAGACGGUGGACAGGCUUCAAACACU-------ACACAGAAUUCGCUGGCCAAAACCAACAUAACAACAAU
--.((((((.....(((((....(.((....)).)....))))).(..(((.......-------.....)))..)))))))..................... ( -19.30)
>DroSim_CAF1 29877 95 + 1
UCCGCCAGCCCGAAGUCCAAGAGCCAGACAUCUAGACGGUGGACAGGCUUCAAACACU-------ACACAGAAUUCGCUG-CCAAAACCAACAUAACAACAAU
((((((..(..((.(((.........))).))..)..))))))..(((..........-------..............)-)).................... ( -14.86)
>DroEre_CAF1 27928 94 + 1
--CGCCAGCCCCACGUCCAAGACCCAGACACCUAGACGGUGGACAGGCUUCAAACACU-------ACACAGAAUUCGCUGGCCAAAACCAACAUGACAACAAU
--.((((((.....((..(((.((....((((.....))))....)))))...)).((-------....)).....))))))..................... ( -18.90)
>DroYak_CAF1 29363 101 + 1
--CGCAAGCCCCACGUCCAAGACGCAGACAUCUGGACGGUGGACAGGCUUCAAACACUACACACUACACAGAAUUCGCUGGCCAAAACUAACAUAACAACAAU
--.((((((((((((((((.((........))))))).))))...)))))..................(((......)))))..................... ( -21.30)
>consensus
__CGCCAGCCCGAAGUCCAAGACCCAGACAUCUAGACGGUGGACAGGCUUCAAACACU_______ACACAGAAUUCGCUGGCCAAAACCAACAUAACAACAAU
...((((((.....(((((......((....))......))))).((.(((...................))).))))))))..................... (-15.43 = -15.67 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:12 2006