Locus 4574

Sequence ID 3R_DroMel_CAF1
Location 12,072,495 – 12,072,615
Length 120
Max. P 0.722247
window7492

overview

Window 2

Location 12,072,495 – 12,072,615
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.67
Mean single sequence MFE -36.98
Consensus MFE -32.68
Energy contribution -33.04
Covariance contribution 0.36
Combinations/Pair 1.13
Mean z-score -1.28
Structure conservation index 0.88
SVM decision value 0.40
SVM RNA-class probability 0.722247
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12072495 120 + 27905053
CCGAGCCCCUUGUUAAUGACUUUCGAAUGGGGCGAGGGUUAAGUUCAGAUCCCUAGAUAAGAGCUAUCGUAGUCGGUGGGUUCAACAAACCACAAGUUAGCUAGUUAAGGGAUUUGAAGG
((..(((((...(..(......)..)..)))))..))......(((((((((((.(((...(((((.((....))((((..........))))....))))).))).))))))))))).. ( -41.10)
>DroSec_CAF1 9028 120 + 1
CCGAGCCCCUUGUUAAUGACUUUCGAUUGGGCCGAGGGUUAAGUUCAGAUCCCUAGAUAAGAGCUAUCGUAGGCGGUGGGUUCAACAAACUUCAGGUUGGCUAGUUGAGGGAUUUGAAGG
..((((((.(((((..(((((((((.......)))))))))(((((..(((....)))..)))))......))))).))))))......(((((((((..(.....)...))))))))). ( -36.10)
>DroSim_CAF1 9460 120 + 1
CCGAGCCCCCUGUUAAUGACUUUCGAUUGGGCCGAGGGUUAAGUUCAGAUCCCUAGAUAAGAGCUAUCGUAGGCGGUGGGUUCAACAAAUUUCAGGUUGGCUAGUUAAGGGAUUUGAAGG
((((((((.(((((..(((((((((.......)))))))))(((((..(((....)))..)))))......))))).))))))..(((((..(...((((....)))))..)))))..)) ( -36.00)
>DroEre_CAF1 11048 120 + 1
CCGAGCCCCUUGUUAAUGACUCUCAAUUGGCCCGAGGGUUAAGUUCAGAUCCCUAGAUAAGAGCUAUCAAAGGCAGUGGGUUCAACAAACUUCAAGUUAGCUAGUUAAGGGAUUUGAAGG
..((((((.(((((..((((((((.........))))))))(((((..(((....)))..)))))......))))).))))))......(((((((((..((.....)).))))))))). ( -37.80)
>DroYak_CAF1 11237 120 + 1
CCGAGCCCCUUGUUAAUGACGCUCGAUUGUCCCGAGGGUUAAGUUCAGAUCCCUAGAUAAGAGCUAUCGUAGGCAGUCGGUUCAACAAACCUCAAGUUGGCUAGUUAAGGGAUUUGAAGG
((..............((((.((((.......)))).))))..(((((((((((.(((...(((((.((....)....((((.....))))....).))))).))).))))))))))))) ( -33.90)
>consensus
CCGAGCCCCUUGUUAAUGACUUUCGAUUGGGCCGAGGGUUAAGUUCAGAUCCCUAGAUAAGAGCUAUCGUAGGCGGUGGGUUCAACAAACUUCAAGUUGGCUAGUUAAGGGAUUUGAAGG
..((((((.(((((..(((((((((.......)))))))))(((((..(((....)))..)))))......))))).))))))......(((((((((..((.....)).))))))))). (-32.68 = -33.04 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:06 2006