Locus 4487

Sequence ID 3R_DroMel_CAF1
Location 11,886,474 – 11,886,591
Length 117
Max. P 0.500000
window7339

overview

Window 9

Location 11,886,474 – 11,886,591
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 79.20
Mean single sequence MFE -41.00
Consensus MFE -26.21
Energy contribution -26.13
Covariance contribution -0.08
Combinations/Pair 1.32
Mean z-score -1.28
Structure conservation index 0.64
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11886474 117 - 27905053
UCCCGCGACGAGAACUGGAAGGCCAAGUUGGCCAAAAUGAAGGCCCGGGUUGGUUUCAAGGCGGCAAUUCGUGUGGCCACCAUUUCCUCACGUUACGCCAAAACCAGCAAGGGAGGA
((((....((..((((((....)).))))((((........)))))).((((((((...((((......((((.((.........)).))))...)))).))))))))..))))... ( -39.60)
>DroVir_CAF1 67473 117 - 1
UCGCGCGAUGAGAACUGGAAGGCCAAGCUAGCUAAGAUGAAAGCGCGCGUUGGUUUUAAGGCGGCUAUACGAGUGGCUACCAUUUCCUCGCGCUAUGCCAGGCCCAAGAAUGGCGAG
..((((((.((((.....((((((((((..(((........)))..)).))))))))..((..(((((....)))))..)).)))).))))))..(((((..(....)..))))).. ( -43.20)
>DroGri_CAF1 60074 117 - 1
UCGCGCGAUGAGAAUUGGAAGGCAAAGUUGGCCAAGAUGAAGGCGCGCGUCGGCUUCAAGGCGGCCAUAAGAGUGGCUACCAUUUCGUCGCGCUAUGCUAAGCCAAAGAAUGGCGAC
..(((((((((((..(((.((.((....(((((....(((((.((.....)).)))))....)))))......)).)).))))))))))))))........((((.....))))... ( -47.70)
>DroWil_CAF1 66004 117 - 1
UCUCGUGAUGAAAACUGGAAGGCCAAGCUGGCUAAAAUGAAAGCGCGGGUGGGCUUCAAAGCGGCCAUACGUGUGGCUACCAUAUCGUCACGCUACUCCAAACCCGCUAAAGGUGAU
...((((((((......((((.(((..((((((........))).))).))).)))).....((((((....))))))......))))))))............(((.....))).. ( -36.40)
>DroMoj_CAF1 52139 117 - 1
UCUCGCGACGAAAACUGGAAGGCCAAACUGGCCAAGAUGAAGGCACGCGUAGGCUUCAAGGCGGCCAUCAGAGUGGCUACGAUUUCCUCGCGCUAUGGCAAGCCGAAGAAUGACGAG
.(((((((.((((..(((....)))...((((((...(((.(((.(((.(........).)))))).)))...))))))...)))).)))).((.(((....))).))......))) ( -38.10)
>DroAna_CAF1 45341 117 - 1
UCGCGAGACGAGAACUGGAAGGCCAAACUGGCCAAGAUGAAGGCUCGCGUCGGCUUCAAGGCAGCCAUUCGUGUGGCCACCAUCUCAUCGCGCUACUCCAAGACCUCCAAGGGCGGC
..((((...((((..(((..((((.....))))........((((((((..((((.......))))...)))).)))).))))))).))))((..(((...(....)...)))..)) ( -41.00)
>consensus
UCGCGCGACGAGAACUGGAAGGCCAAGCUGGCCAAGAUGAAGGCGCGCGUCGGCUUCAAGGCGGCCAUACGAGUGGCUACCAUUUCCUCGCGCUACGCCAAGCCCAAGAAUGGCGAC
...(((((.((((..(((..(((((...(((((....(((((.(.......).)))))....)))))......))))).))))))).)))))......................... (-26.21 = -26.13 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:38 2006