Locus 4344

Sequence ID 2R_DroMel_CAF1
Location 14,288,563 – 14,288,680
Length 117
Max. P 0.838545
window6959

overview

Window 9

Location 14,288,563 – 14,288,680
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.36
Mean single sequence MFE -34.64
Consensus MFE -20.51
Energy contribution -21.77
Covariance contribution 1.25
Combinations/Pair 1.25
Mean z-score -1.54
Structure conservation index 0.59
SVM decision value 0.74
SVM RNA-class probability 0.838545
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14288563 117 + 20766785
UCAGACGCGCAACAAUCCCAAGAAGAAACUGAAAGGAUCAUAGUCCAUAACCAGCGCUGAUGCGGCAAUGGCGUCCCUUUCGCCGCUGCAGUCCAGCGCACU---AGGAGGAGCAGCAGG
......((((.....(((................((((....)))).......((((((.((((((...((((.......))))))))))...))))))...---.)))...)).))... ( -37.10)
>DroVir_CAF1 29152 101 + 1
CCAGGCACGCAACAAUCCCAAGAAGAAACUCAAGGGCUCAUAGUCCAUAACCAGCGCUGAUUCGGUGCUGGUG------GCACCGCUGCACCACAGCGCAAC---UGGUC----------
((((....((.......................((((.....))))...((((((((((...)))))))))).------))..(((((.....)))))...)---)))..---------- ( -34.60)
>DroPse_CAF1 20050 112 + 1
UCAGACCCGCAGCAAUCCAAAGAAAAAGCUCAAGGGCUCAUAGUCUAUAACCAGCGCUGAUGCGGCAAUGGCGAUGGUGGCGCCGCUGCAGUCCAGCGCGAUUAUUGGAGGA--------
.....((..(((.((((...(((...((((....)))).....))).......((((((.((((((...((((.......))))))))))...)))))))))).)))..)).-------- ( -37.70)
>DroMoj_CAF1 25990 98 + 1
UCUGGCACGAAAUAAUCCCAAAAAGAAAUUGAAGGGCUCAUAGUCUAUAACCAGCGCUGAUGCGGUAAUUG---------GGCCGCUGCAGCACAGCGCAUC---UGGUA----------
..(((.((........(((...((....))...)))......)))))..((((((((((.((((((.....---------....))))))...))))))...---)))).---------- ( -25.64)
>DroAna_CAF1 21413 98 + 1
UCAGACCCGCAACAAUCCCAAAAAGAAACUGAAAGGAUCAUAGUCUAUAACCGGCGCGGAUGCGGC------------UUCCUUGCCGCAGUCCAGCGCCAC---CAGUGGAG-------
......((((.............(((...(((.....)))...)))......((((((((((((((------------......)))))).))).)))))..---..))))..------- ( -35.10)
>DroPer_CAF1 20055 112 + 1
UCAGACCCGCAGCAAUCCAAAGAAAAAGCUCAAGGGCUCAUAGUCUAUAACCAGCGCUGAUGCGGCAAUGGCGAUGGUGGCGCCGCUGCAGUCCAGCGCGAUUAUUGGAGGA--------
.....((..(((.((((...(((...((((....)))).....))).......((((((.((((((...((((.......))))))))))...)))))))))).)))..)).-------- ( -37.70)
>consensus
UCAGACCCGCAACAAUCCCAAGAAGAAACUCAAGGGCUCAUAGUCUAUAACCAGCGCUGAUGCGGCAAUGGCG______GCGCCGCUGCAGUCCAGCGCAAC___UGGAGGA________
.................................((((.....)))).......((((((.((((((...((((.......))))))))))...))))))..................... (-20.51 = -21.77 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:28 2006