Locus 4919

Sequence ID 2R_DroMel_CAF1
Location 16,068,996 – 16,069,103
Length 107
Max. P 0.635534
window7879

overview

Window 9

Location 16,068,996 – 16,069,103
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.68
Mean single sequence MFE -34.12
Consensus MFE -23.58
Energy contribution -24.90
Covariance contribution 1.32
Combinations/Pair 1.09
Mean z-score -1.85
Structure conservation index 0.69
SVM decision value 0.21
SVM RNA-class probability 0.635534
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16068996 107 - 20766785
GAACUGCAUAUUAUUAAUUUAAUGUGCGCUCGUUUCGAAUUCGGAGU-CCGUGGAUGGGAAGUGGGCU-----CCCAGUUUCCAA-------UUCUUGGUGCACUUUUCUGGGAAACAUG
((..(((((((((......))))))))).))(((((....((((((.-(((.(((((((((.(((...-----.))).))))).)-------))).))).......)))))))))))... ( -32.30)
>DroSec_CAF1 122809 107 - 1
GAACUGCAUAUUAUUAAUUUAAUGUGCGCUCGUUUCGAAUUCGGAGU-UCGUGGAUGGGAAGUGGGCU-----CUCAGUGCCCAA-------UGCUUGGUGCACUUUUCUGGGAAACAUG
.....((((((((......))))))))(((((((((..((((((...-.).)))))..)))))))))(-----(((((((((((.-------....))).)))).....)))))...... ( -31.80)
>DroSim_CAF1 126660 107 - 1
GAACUGCAUAUUAUUAAUUUAAUGUGCGCUCGUUUCGAAUUCGGAGU-UCGUGGAUGGGAAGUGGGCU-----CCCAGUUCCCAA-------UGCCUGGUGCACUUUUCUGGGAAACAUG
(((((((((((((......)))))))).......(((....))))))-))(((..((((((.(((...-----.))).)))))).-------..((..(.........)..))...))). ( -35.60)
>DroEre_CAF1 129571 105 - 1
GAACUGCAUAUUAUUAAUUUAAUGUGCGCUCGUCUCGAAUUCGGAGUUUCGGGGAUGGGAAGUGAGUG-AG-------UUCCCAG-------UUCUGGGUGCACUUUUCUGAGAAACAUG
.....((((((((......)))))))).(((.(((((((........)))))))...((((..(((((-..-------..((((.-------...))))..))))))))))))....... ( -31.30)
>DroYak_CAF1 134215 120 - 1
GAACUGCAUAUUAUUAAUUUAAUGUGCGCUCGUCUCGAAUUCGGUGUUUUGGGGAUGGGAAGUGAGUUCAGUUCCCAGUUCCCAGUUCUCUGUUCUCGUUGCACUUUUCUGAGAAACAUG
((..(((((((((......))))))))).))((..(((...(((.(..(((((((((((((.((....)).)))))).)))))))..).)))...)))..)).(((....)))....... ( -39.60)
>consensus
GAACUGCAUAUUAUUAAUUUAAUGUGCGCUCGUUUCGAAUUCGGAGU_UCGUGGAUGGGAAGUGGGCU_____CCCAGUUCCCAA_______UUCUUGGUGCACUUUUCUGGGAAACAUG
((..(((((((((......))))))))).))(((((....((((((.........((((((.((((.......)))).)))))).............(.....)..)))))))))))... (-23.58 = -24.90 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:12 2006