Locus 1228

Sequence ID 2R_DroMel_CAF1
Location 4,841,049 – 4,841,166
Length 117
Max. P 0.666575
window2134

overview

Window 4

Location 4,841,049 – 4,841,166
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 90.86
Mean single sequence MFE -39.23
Consensus MFE -30.70
Energy contribution -32.03
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.38
Structure conservation index 0.78
SVM decision value 0.28
SVM RNA-class probability 0.666575
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4841049 117 - 20766785
UCGGAUUUGGACCAAAACGAGGAGCCAUGAAAGGGGCCAAGUUGAUGAGUGCACAUCUCGAUUUGGCAUCUUCCCUGGCCCAUUUGAGUAUCCCAUUGAGCACGUUUAAAGCCGAUC
((((.(((((((........((.((((.(.(((..((((((((((.((.......))))))))))))..))).).))))))......((.((.....))..))))))))).)))).. ( -37.60)
>DroSim_CAF1 1711 105 - 1
UCGGAUUUGG------------AGCCAUGAAAGGGGCCAAGUUGAUGAGUGCACAUCUCGAUUUGGCAUCUUCCUUGGCCCAUUUGAGUAUCCCAUUGAGCACGCUUAAAGCCGAUC
((((...(((------------.((((.(.(((..((((((((((.((.......))))))))))))..))).).)))))))(((((((.((.....))....))))))).)))).. ( -36.30)
>DroYak_CAF1 2048 116 - 1
ACGGAUUUGGACG-AAACGAGGAGCCAUGAAAGGGGCCAAGUUGAUGAGUGCACAUCUCGAUUUGGCAUCUUCCAUGGCCCAUUUGAGUAUCCCAUUGAGCACGUUUAAAGCCGAUC
.(((.((((((((-......((.((((((.(((..((((((((((.((.......))))))))))))..))).))))))))...((..((......))..)))))))))).)))... ( -43.80)
>consensus
UCGGAUUUGGAC__AAACGAGGAGCCAUGAAAGGGGCCAAGUUGAUGAGUGCACAUCUCGAUUUGGCAUCUUCCAUGGCCCAUUUGAGUAUCCCAUUGAGCACGUUUAAAGCCGAUC
.(((.(((((((........((.((((.(.(((..((((((((((.((.......))))))))))))..))).).))))))......((.((.....))..))))))))).)))... (-30.70 = -32.03 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:32 2006