Locus 3001

Sequence ID 3R_DroMel_CAF1
Location 8,035,728 – 8,035,847
Length 119
Max. P 0.515092
window4830

overview

Window 0

Location 8,035,728 – 8,035,847
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.68
Mean single sequence MFE -39.23
Consensus MFE -22.36
Energy contribution -22.70
Covariance contribution 0.34
Combinations/Pair 1.39
Mean z-score -1.54
Structure conservation index 0.57
SVM decision value -0.04
SVM RNA-class probability 0.515092
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8035728 119 + 27905053
ACCGCGACUCUUCAGUUGCUGGGCAAUGCGAAUAGCCCAAGUGAGAGCCUGUCCGAAGGUGACCUCCACGCCCUCGGAGUCGGAAAUCUGAUGAUACAUAGGGAUGACACAGAACAU-CA
...((((((....))))))(((((.((....)).)))))........(((((((((.((((.......)))).)))))(((((....)))))......))))((((........)))-). ( -37.80)
>DroPse_CAF1 119514 109 + 1
GCCACGUUUCUUCAGCUGCUGGGCAAUGCGGAUGGCCCAGGUGAGAGCCUCCUGGAAGGUAACUUCCACCUCCUCAGUGUCCGAGAUCUAUGGGAC-----------CACAAUCCUUUUA
.....((..(...((...(((((((.((.(((.((...((((....))))..((((((....))))))))))).)).))))).))..))..)..))-----------............. ( -32.40)
>DroSec_CAF1 101845 108 + 1
ACCGCGGCUCUUCAGGUGCUGGGCAAUGCGAAUAGCCCAAGUGAGGGCCUGCCCGAAGGUGACCUCCACGCCCUCGGAGUCGGAAAUCUGAUGAAG-----------CACAGCACAU-UA
...(((((((((.....(((((((.((....)).)))).))))))))))(((((((.((((.......)))).)))).(((((....)))))...)-----------))..))....-.. ( -38.70)
>DroEre_CAF1 104874 108 + 1
ACCGCGGCUCUUCAGGUGCUGGGCAAUGCGAAUAGCCCAGGUGAGAGCCUGUCCGUAGGUGACCUCCACACCCUCGGAGUCGGAAAUCUGAAGAAA-----------GACGGAACAU-CA
.((((...(((((((((..(.(((...((.....)).(((((....)))))((((..((((.......))))..))))))).)..)))))))))..-----------).))).....-.. ( -41.20)
>DroYak_CAF1 106730 108 + 1
ACCGCGGCUCUUCAGGUGCUGGGCAAUGCGAAUAGCCCAGGUGAGAGCCUGUCCGUAGGUGACCUCCACACCCUCGGAGUCGGAAAUCUGAAGAAA-----------CACUGUGCAU-UA
..(((((.(((((((((..(.(((...((.....)).(((((....)))))((((..((((.......))))..))))))).)..)))))))))..-----------..)))))...-.. ( -40.30)
>DroAna_CAF1 109864 108 + 1
ACCACGACUCUUCAGGUUCUGGGCAAUGCGAACGGCCCAGGUGAAAGCCUGCUGAAAAGUGACCUUCACGCCGUCGGUGUCCGAAAUCUGCAAGAG-----------CGUAAGCCAU-GA
...(((.(((((((((((.((((((...(((.((((.(((((....))))).......(((.....)))))))))).)))))).)))))).)))))-----------))).......-.. ( -45.00)
>consensus
ACCGCGGCUCUUCAGGUGCUGGGCAAUGCGAAUAGCCCAGGUGAGAGCCUGCCCGAAGGUGACCUCCACGCCCUCGGAGUCGGAAAUCUGAAGAAA___________CACAGAACAU_UA
....(((((((...(((.((((((.((....)).))))))(((.(((..((((....))))..)))))))))...)))))))...................................... (-22.36 = -22.70 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:51 2006