Locus 3510

Sequence ID 3R_DroMel_CAF1
Location 9,491,868 – 9,491,982
Length 114
Max. P 0.739497
window5639

overview

Window 9

Location 9,491,868 – 9,491,982
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.39
Mean single sequence MFE -44.90
Consensus MFE -23.46
Energy contribution -24.63
Covariance contribution 1.17
Combinations/Pair 1.22
Mean z-score -1.94
Structure conservation index 0.52
SVM decision value 0.45
SVM RNA-class probability 0.739497
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9491868 114 - 27905053
GGCC---AAACUUACCGUGAACGGGAGUCGCGGUGGA-UGGACUUGGAACGUGAGCGGGAACGGGACUCGCGCU-UCGAGACGGACCGCGAUCGGGAACGGGA-GUCACGCUCACGUUUG
..((---(...(((((((((.(....)))))))))).-))).....(((((((((((....)..((((((((.(-(((...)))).)))..(((....)))))-)))..)))))))))). ( -49.00)
>DroVir_CAF1 162550 106 - 1
AG-----ACACUUACCGUGAACGCGAAUCGCGACGAU-UAGACUUUGAACGUGAUCGAGAACGUGACUCACGCU-UGGAAUUGGAGCGUGAGCGUGAGUGCGA-GUCGC------GCUUG
..-----.(((.....)))..(((((.(((((.((((-(((........).))))))....((((.((((((((-(.......)))))))))))))..)))))-.))))------).... ( -35.70)
>DroPse_CAF1 124552 114 - 1
CACC---UAACUUACCGUGAACGAGAGUCGCGAUGGU-UUGACUUGGAACGUGAACGGGAGCGUGAUUCACGCU-UCGAAUUGGAGCGAGAGCGAGAACGAGA-AUCGCGCUCACGCUUG
....---.......((((..(((.((((((.......-.))))))....)))..))))(((((((((((.((((-((.....))))))....((....)).))-)))))))))....... ( -41.70)
>DroWil_CAF1 133277 111 - 1
A------ACACUUACCGCGAACGAGAGUCACGGCGAU-UUGACUUGGAACGUGAACGAGAACGCGACUCACGCU-UCGAGUUGGAGCGUGAGCGGGAGCGUGA-GUCACGUUCGCGCUUU
.------........((((((((.((.((((.(((.(-(..(((((((.(((((.((......))..))))).)-))))))..)).)))..((....))))))-.)).)))))))).... ( -48.40)
>DroAna_CAF1 116180 117 - 1
AACUAAGAGACUUACCGUGAGCGGGAGUCGCGGCGAU-UCGACUUGGAACGGGAACGGGAGCGGGACUCUCGCU-UCGAUGCGGAGCGGGAGCGGGAACGGGA-GUCGCGCUCGCGCUUU
..............(((((((((((((((.(.((..(-((......)))((....))...)).)))))))))))-)....))))((((.(((((.((.(....-))).))))).)))).. ( -51.50)
>DroPer_CAF1 127584 117 - 1
CACC---UUACUUACCGUGAACGAGAGUCGCGAUGGUUUUGACUUGGAACGUGAACGGGAGCGUGAUUCACGCUUUCGAAUUGGAGCGAGAGCGAGAACGAGAAAUCGCGCUCACGCUUG
(((.---........(((((.(....))))))...(((((.....))))))))..((..((((((...))))))..)).....(((((.(((((....(((....)))))))).))))). ( -43.10)
>consensus
AACC___AAACUUACCGUGAACGAGAGUCGCGACGAU_UUGACUUGGAACGUGAACGGGAACGUGACUCACGCU_UCGAAUUGGAGCGAGAGCGGGAACGAGA_GUCGCGCUCACGCUUG
..............((((..(((.(((((...........)))))....)))..))))(((((.((((((((((.(((...)))))))))).((....))....))).)))))....... (-23.46 = -24.63 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:54 2006