Locus 6132

Sequence ID 3L_DroMel_CAF1
Location 16,228,380 – 16,228,488
Length 108
Max. P 0.696853
window9853

overview

Window 3

Location 16,228,380 – 16,228,488
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 80.17
Mean single sequence MFE -31.40
Consensus MFE -21.14
Energy contribution -22.70
Covariance contribution 1.56
Combinations/Pair 1.21
Mean z-score -1.52
Structure conservation index 0.67
SVM decision value 0.34
SVM RNA-class probability 0.696853
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16228380 108 + 23771897
AGGAGCCAUCUCACAAAUAGGCGUCCUCAAGACUCGGCCGCCAGAGCACCUGUCGCCCGAAGCUCAACUCAAGUUCACACGGAGUUUAGCCAUCUCUUUGACGGACAU
....(((............)))(((((((((..((((.((.(((.....))).)).)))).(((.(((((..(....)...))))).)))......))))).)))).. ( -31.10)
>DroSec_CAF1 1874 108 + 1
AGGAGCCAUCUCACAAAUAGGCGUCCUCAAGACUCGGCCGCCAGAACACCUGUCGCCCGAAGCUCAACUCAAAUUCCCCCGGAGUUUAGCCACCUCUUUGACGGACAU
....(((............)))(((((((((..((((.((.(((.....))).)).)))).(((.(((((...........))))).)))......))))).)))).. ( -30.80)
>DroSim_CAF1 1879 108 + 1
AGGAGCCAUCUCACAAAUAGGCGUCCUCAAGACUCGGCCGCCAGAACACCUGUCGCCCGAAGCUCAACUCAAAUUCCCCCGGAGUUUAGCCACCUCUUUGACGGACAU
....(((............)))(((((((((..((((.((.(((.....))).)).)))).(((.(((((...........))))).)))......))))).)))).. ( -30.80)
>DroEre_CAF1 1911 107 + 1
AGGAGCCAUCUCACAGAUAGGCGUCCUCAAGACUCGGCCGCCAGAGCGCCUGUCGCCCGAAGCUCAGCUCAAGAUCC-CCGGAGCUUAGCCACCUCUUUGACGGACAU
....((((((.....))).)))(((((((((..((((.((.(((.....))).)).)))).(((.(((((..(....-)..))))).)))......))))).)))).. ( -37.20)
>DroYak_CAF1 7106 107 + 1
AGGAGCCAUCUCACAAUUAGGCGUCCUCAAGGCUUGGCCGCCAGAGCACCUGUCGCCCGAAGCUCAACUCGAGUUCC-CCGUUGUUUAGCCACCUCUUUGACGGACAU
....(((............)))((((((((((.((((.((.(((.....))).)).)))).(((.(((.((......-.))..))).))).....)))))).)))).. ( -28.40)
>DroAna_CAF1 29228 88 + 1
--GAGCCAGUUUCCAGCGAGUCCAUCACAAAA---GGCCUC-----CGCCUGUCACCCAAAGCUGG--------UCACCUG--UUUUGGCCGACGACUUGUCGGACAU
--.........(((.(((((((.........(---(((...-----.))))(((..(((((((.((--------...)).)--))))))..)))))))))).)))... ( -30.10)
>consensus
AGGAGCCAUCUCACAAAUAGGCGUCCUCAAGACUCGGCCGCCAGAGCACCUGUCGCCCGAAGCUCAACUCAAGUUCCCCCGGAGUUUAGCCACCUCUUUGACGGACAU
....(((............)))(((((((((..((((.((.(((.....))).)).)))).(((.(((((...........))))).)))......))))).)))).. (-21.14 = -22.70 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:56 2006