Locus 646

Sequence ID 2L_DroMel_CAF1
Location 1,947,088 – 1,947,187
Length 99
Max. P 0.505575
window1053

overview

Window 3

Location 1,947,088 – 1,947,187
Length 99
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 94.93
Mean single sequence MFE -30.24
Consensus MFE -27.75
Energy contribution -27.35
Covariance contribution -0.40
Combinations/Pair 1.07
Mean z-score -1.08
Structure conservation index 0.92
SVM decision value -0.05
SVM RNA-class probability 0.505575
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1947088 99 + 22407834
CCGCGGUGCGGUUUUGUGCUCAGGUGUGAAUAAGCGUGCAAGAAGUUGACAUAAAGCCAGGCGA-ACAG--------GCGGACAAUGGCUGGAGCAAUGGAAUCGCAA
......((((((((..(((((..((((.(((...(......)..))).))))..(((((.((..-....--------))......))))).)))).)..)))))))). ( -29.90)
>DroSec_CAF1 111752 99 + 1
CCGCGGUGCGGUUUUGUGCUCAGGUGUGAAUAAGCGUGCAAGAAGUUGACAUAAAGCCAGGCGA-ACAG--------GCGGACAAUGGCUGGAGCAAUAGAAUCGCAA
......(((((((((((((((..((((.(((...(......)..))).))))..(((((.((..-....--------))......))))).)))).))))))))))). ( -30.40)
>DroSim_CAF1 95718 100 + 1
CCGCGGUGCGGUUUUGUGCUCAGGUGUGAAUAAGCGUGCAAGAAGUUGACAUAAAGCCAGGCGAAACAG--------GCGGACAAUGGCUGGAGCAAUAGAAUCGCAA
......(((((((((((((((..((((.(((...(......)..))).))))..(((((.((.......--------))......))))).)))).))))))))))). ( -29.90)
>DroEre_CAF1 114237 107 + 1
CCGCGGUGCGGUUUUGUGCUCAGGUGUGAAUAAGCGUGCAAGAAGUUGACAUAAAGCCAGGCGA-GCAGGCGAACAGGCGGACAAUGGCUGGAGCAAUGGAAUCGCAA
......((((((((..(((((..((((.(((...(......)..))).))))..(((((.....-((..(....)..))......))))).)))).)..)))))))). ( -32.60)
>DroYak_CAF1 122711 99 + 1
CCGCGGUGCGGUUUUGUGUUCAGGUGUGAAUAAGCGUGCAAGAAGUUGACAUAAAGCCAGGCGA-GCAG--------GCGGACAAUGGCUGGAGCAAUGGAAUCGCAA
..(((((.(((((((((((((..(..((......))..)..)).....))))))))))..((..-.(((--------.((.....)).)))..))....).))))).. ( -28.40)
>consensus
CCGCGGUGCGGUUUUGUGCUCAGGUGUGAAUAAGCGUGCAAGAAGUUGACAUAAAGCCAGGCGA_ACAG________GCGGACAAUGGCUGGAGCAAUGGAAUCGCAA
......(((((((((((((((..((((.(((...(......)..))).))))..(((((..........................))))).)))).))))))))))). (-27.75 = -27.35 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:47 2006