Locus 3224

Sequence ID 2R_DroMel_CAF1
Location 11,000,226 – 11,000,322
Length 96
Max. P 0.579053
window5298

overview

Window 8

Location 11,000,226 – 11,000,322
Length 96
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 77.77
Mean single sequence MFE -31.40
Consensus MFE -21.24
Energy contribution -22.93
Covariance contribution 1.70
Combinations/Pair 1.22
Mean z-score -1.15
Structure conservation index 0.68
SVM decision value 0.09
SVM RNA-class probability 0.579053
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11000226 96 + 20766785
CUGCGGUGGCCACUGGCUGACCUUGGCCCCAAUAAGGGGCUCGGUCCAGUCGCUGAUGCCCUCGAAUUGUCGCCUGAUCUGAUUGUAAAACUG--------UAA
.(((((((((((.(((((((((..((((((.....)))))).))).)))))).))..)))..(((....))).................))))--------)). ( -32.60)
>DroSec_CAF1 112499 96 + 1
CUGCGGUGGCCACUGGCUGACCUUGGCCCCAAUAAGGGGCUCGGUCCAGUCGCUGAUGCCCUCGAAUUGUCGCCUGAUCUGAUUGUAAAACUG--------UAA
.(((((((((((.(((((((((..((((((.....)))))).))).)))))).))..)))..(((....))).................))))--------)). ( -32.60)
>DroSim_CAF1 114880 96 + 1
CUGCGGUGGCCACUGGCUGACCUUGGCCUCAAUAAGGGGCUCGGUCCAGUCGCUUUUGCCCUCGAAUUGUCGACUGAUCUGAUUGUAAAACUG--------UAA
.((((((((((...))))((((..((((((.....)))))).))))(((((((.((((....))))..).)))))).............))))--------)). ( -31.30)
>DroEre_CAF1 115717 101 + 1
CUGCGGUGGCCACCGGCUAACCUUGGCCCCAAUGAGGGGCUCGGUCCAGUCGCUGAUACCCUCGAAAAGUUACCUGAUCUAAA---CAAACUGAUCUGAACGAA
....((.(((((..((....)).)))))))..((((((..(((((......)))))..))))))....(((....((((....---......))))..)))... ( -32.60)
>DroYak_CAF1 117606 93 + 1
CUGCGGUGGCCACCGGCUGACCUUGGCCCCAAUAAGGGGCUCGGUCCAGUCGCUAAUGCCGCCGAAUUAUUGCCUGAUCUGAA---CAAAUUG--------UAA
...(((((((...(((((((((..((((((.....)))))).))).)))))).....)))))))...................---.......--------... ( -37.30)
>DroAna_CAF1 116487 77 + 1
CUGUGGUGGCCACCGGCUAACCUUGGCCUAAAUAUAGGGGCCGAC-------CUGAGGCGAUCGA------GGCUGAUCUGA------AGUUG--------UAA
((..(((((((.(((((((....)))))........)))))).))-------)..))..(((((.------...)))))...------.....--------... ( -22.00)
>consensus
CUGCGGUGGCCACCGGCUGACCUUGGCCCCAAUAAGGGGCUCGGUCCAGUCGCUGAUGCCCUCGAAUUGUCGCCUGAUCUGAU___AAAACUG________UAA
...(((.(((((.(((((((((..((((((.....)))))).))).)))))).))..))).)))........................................ (-21.24 = -22.93 +   1.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:26 2006