Locus 5730

Sequence ID 3L_DroMel_CAF1
Location 15,605,512 – 15,605,632
Length 120
Max. P 0.725026
window9076

overview

Window 6

Location 15,605,512 – 15,605,632
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.75
Mean single sequence MFE -35.14
Consensus MFE -28.98
Energy contribution -30.50
Covariance contribution 1.52
Combinations/Pair 1.08
Mean z-score -1.49
Structure conservation index 0.82
SVM decision value 0.41
SVM RNA-class probability 0.725026
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15605512 120 + 23771897
GACAAAUGUGUGGCAAAGAAAAAAUCGCUUGGCAGGCGAGGAUGGGCGACGCAACAGUUUGCCAGGGGAUAUUGACGGACCAGAGUCGCGUUGAGUUGCUAUCAAUGGCAUUGGAGGAAU
....((((((((((((.......(((.((((((((((...(.(((....).)).).)))))))))).))).(..((((((....))).)))..).))))))).....)))))........ ( -37.70)
>DroSec_CAF1 28655 120 + 1
GACAAACGUGUGGCAAAGAAAAAAUCGCUUGGCAGGCGAGGAUGGGCGACGCAACAGUUUGCCAGGGGAUAUUGACGGACCAGAGUCGCGUUGAGUUGCUAUCAAUGGCAUUGGAGGAAU
..(((.((((((((((.......(((.((((((((((...(.(((....).)).).)))))))))).))).(..((((((....))).)))..).)))))))..)))...)))....... ( -37.10)
>DroSim_CAF1 28592 120 + 1
GACAAACGUGUGGCAAAGAAAAAAUCGCUUGGCAGGCGAGAAUGGGCGACGCAACAGUUUGCCAGGGGAUAUUGACGGACCAGAGUCGCGUUGAGUUGCUAUCAAUGGCAUUGGAGGAAU
..(((.((((((((((.......(((.((((((((((.....(((....).))...)))))))))).))).(..((((((....))).)))..).)))))))..)))...)))....... ( -35.80)
>DroEre_CAF1 28546 106 + 1
GACAAACGUGUGGCGAAGAAAAAAUCGCU--------------GGGCGACGCAACAGUUUGCCAGGGGAUAUGAACGGACCAGAGUCGCGUUGAGUUGCUAUCAAUGGCAUUGGAGGAAU
..(((.(((.((((((........)))))--------------).)))...........(((((...(((((.(((((((....))).)))).).....))))..))))))))....... ( -28.00)
>DroYak_CAF1 30799 120 + 1
GACAAACGUGUGGCAAAGAAAAAAUCGCUUGGCAGGCGAGGAUGGGCGACGCAACAGUUUGCCAGGGGAUAUUGACGGACCAGAGUCGCGUUGAGUUGCUAUCAAUGGCAUUGGAGGAAU
..(((.((((((((((.......(((.((((((((((...(.(((....).)).).)))))))))).))).(..((((((....))).)))..).)))))))..)))...)))....... ( -37.10)
>consensus
GACAAACGUGUGGCAAAGAAAAAAUCGCUUGGCAGGCGAGGAUGGGCGACGCAACAGUUUGCCAGGGGAUAUUGACGGACCAGAGUCGCGUUGAGUUGCUAUCAAUGGCAUUGGAGGAAU
..(((.((((((((((.......(((.((((((((((.....(((....).))...)))))))))).))).(((((((((....))).)))))).)))))))..)))...)))....... (-28.98 = -30.50 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:00 2006