Locus 4038

Sequence ID 3L_DroMel_CAF1
Location 11,778,527 – 11,778,647
Length 120
Max. P 0.500000
window6287

overview

Window 7

Location 11,778,527 – 11,778,647
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.08
Mean single sequence MFE -40.46
Consensus MFE -27.85
Energy contribution -29.65
Covariance contribution 1.80
Combinations/Pair 1.17
Mean z-score -1.64
Structure conservation index 0.69
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11778527 120 + 23771897
AUUCGGGCGGAUGGCACCAGAAUAUCGUUAGCUGCUUGCCUGCCGCACAGGCUAGUCACCUCUAUAUACUCUUCUGUCGUCUGAUCGUAACGCUCCACCGUCAAUCGAUCGGUCGAGCAG
...((..(((((((((..(((.(((....((.((((.(((((.....))))).)).)).))....))).)))..)))))))))..))....((((.((((((....)).)))).)))).. ( -41.30)
>DroSec_CAF1 14233 119 + 1
AUCCGAUCGGAUGGCAC-AGAAUAUCGUUAGCUGUUUGCCUGCCGCACAGGCAAGUCAACUCUAUAUACUCUUCAGUCGUCCGAUUGUAACGCUCCAACGUCAUUUGAUCGGUCGAGCAG
...((((((((((((..-(((.(((....((.((((((((((.....)))))))).)).))....))).)))...))))))))))))....((((...((((....)).))...)))).. ( -40.70)
>DroSim_CAF1 13431 120 + 1
AUCCGGUGGGAUGGCACCAGAAUAUCGUUAGCUGAUUGCCUGCCGCACAGGCUAGUCACCUCUAUAAACUCUUCAGUCGUCCGAUCGUAACGCUCCACCGUCAAUCGAUCGGUCGAGCAG
...((((.(((((((...(((........((.((((((((((.....))))).))))).))........)))...))))))).))))....((((.((((((....)).)))).)))).. ( -42.69)
>DroEre_CAF1 14752 120 + 1
AUCCUGGUGGAUGGCACCAGAAUAUCGCUAGCUGCUUGCCUGUUGCACAGACUAGUCACCUCCAUGAAAUCAUUGGUCGUCCGAUCGUAGCGCUGCACCGUCAAUCGAUCGGCCGAGCAG
...((((((.....))))))......((((((((..(((.....)))))).))))).................((.(((.(((((((..(((......)))....))))))).))).)). ( -37.30)
>DroYak_CAF1 14209 120 + 1
AUCCGGAAGGAUGGCACCAGUAUAUCGCUAGCUGCUUGCCUGCCGCACAGGCUGGUCACCUCAACAAACUCUUUGGUCGUCCGAUCGUAACGCUCCACGGUCAAGCGAUCGACGGAGCAG
((((....))))((.((((.......((.....))..(((((.....)))))))))..))........((((((((((((..((((((........))))))..)))))))).))))... ( -40.30)
>consensus
AUCCGGGCGGAUGGCACCAGAAUAUCGUUAGCUGCUUGCCUGCCGCACAGGCUAGUCACCUCUAUAAACUCUUCAGUCGUCCGAUCGUAACGCUCCACCGUCAAUCGAUCGGUCGAGCAG
...(((.((((((((...(((........((.((((.(((((.....))))).)).)).))........)))...)))))))).)))....((((.((((((....)).)))).)))).. (-27.85 = -29.65 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:59 2006