Locus 6580

Sequence ID 2L_DroMel_CAF1
Location 18,505,026 – 18,505,146
Length 120
Max. P 0.699503
window10495

overview

Window 5

Location 18,505,026 – 18,505,146
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.37
Mean single sequence MFE -25.80
Consensus MFE -22.84
Energy contribution -22.90
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -1.50
Structure conservation index 0.89
SVM decision value 0.35
SVM RNA-class probability 0.699503
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18505026 120 + 22407834
UUGAAACUCGCACUCUGAUGAAUUUUUUAACUCCGUUGUCGAAAGUUCAUUGGCCAAUUGGCCAAUUCUAUUUCGCAGUACAAAUUAUAUGUUUGCAAUUGCUGAUCUGUCGACCGACAC
..................................((((((((.((.(((((((((....)))))).........(((((.(((((.....)))))..)))))))).)).)))).)))).. ( -28.20)
>DroSec_CAF1 25493 111 + 1
UCAAAA-UCGCACUCUGAUGAAUUUUUGAACCUUGUUGUCGAAAGUUCAUUGG--------CCAAUUCUAUUUCGCAGUACAAAUUAUAUGUUUGCAAUUGCUGAUCUGUCGAUCGACAC
.....(-(((((..(..((((((((((((.........))))))))))))..)--------.............((((.(((.......)))))))...))).))).((((....)))). ( -23.90)
>DroSim_CAF1 24744 112 + 1
UCAAAACUCGCACUCUGAUGAAUUUUUGAACCCCGUUGUCGAAAGUUCAUUGG--------CCAAUUCUAUUUCGCAGUACAAAUUAUAUGUUUGUAAUUGCUGAUCUGUCGAUCGACAC
(((...........(..((((((((((((.........))))))))))))..)--------.............(((((((((((.....)))))).))))))))..((((....)))). ( -26.10)
>DroYak_CAF1 25576 111 + 1
UCAAAACUCGCACUC-GGUGAAUUUUUGAACCCUGUCGUCGAAAGUUCAUUGG--------CCAAUUCUAUUUCGCAGUACAAAUAAUAUGUUUGCAAUUGCUGGUCUGUCGAUCGACAC
((((((.((((....-.))))..))))))....(((((((((.........((--------(((..........(((((.(((((.....)))))..))))))))))..)))).))))). ( -25.00)
>consensus
UCAAAACUCGCACUCUGAUGAAUUUUUGAACCCCGUUGUCGAAAGUUCAUUGG________CCAAUUCUAUUUCGCAGUACAAAUUAUAUGUUUGCAAUUGCUGAUCUGUCGAUCGACAC
((((((....((......))...)))))).....((((((((.((.(((((((((....)))))).........(((((.(((((.....)))))..)))))))).)).)))).)))).. (-22.84 = -22.90 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:39 2006