Locus 3406

Sequence ID 3R_DroMel_CAF1
Location 9,233,627 – 9,233,740
Length 113
Max. P 0.875948
window5468

overview

Window 8

Location 9,233,627 – 9,233,740
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 93.27
Mean single sequence MFE -28.60
Consensus MFE -23.28
Energy contribution -24.16
Covariance contribution 0.88
Combinations/Pair 1.10
Mean z-score -1.75
Structure conservation index 0.81
SVM decision value 0.89
SVM RNA-class probability 0.875948
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9233627 113 - 27905053
GUUUUGCAUAUAAGAGGCAAUAGGCCAUUCCGAUCAUAAAGCCAUAAGCACCCGAUGAUUUAUUUAUUGGGCACUAUGUGUUCAUUUAGCAUGUUUAAGAUUAUUGUGUACCA
....((((((.....(((.....))).....((((.((((......((..((((((((.....))))))))..))..(((((.....))))).)))).))))..))))))... ( -22.70)
>DroSec_CAF1 4518 113 - 1
GUUUUGCAUAUAAGAGGCAAUGGGCCAUUCCGAUCAUAAAGACAUAAGCACCCGAUGUUUUAUUUAUUGGGGACUAUGUGUUCAUUUAGCAUGUUUAAGAUUAUUGUGUGCGA
...((((((((((..(((.....))).....((((.((((((((((((..(((((((.......)))))))..)).))))))(((.....))))))).)))).)))))))))) ( -30.10)
>DroSim_CAF1 4315 113 - 1
GUUUUGCAUAUAAGAGGCAAUGGGCCAUUCCGAUCAUAAAGCCAUAAGCACCCGAUGAUUUAUUUAUUGGGGACUAUGUGUUCAUUUAGCAUGUUUAAGAUUAUUGUGUGCGA
...((((((((((..(((.....))).....((((.((((......((..((((((((.....))))))))..))..(((((.....))))).)))).)))).)))))))))) ( -30.20)
>DroEre_CAF1 4589 112 - 1
GUUUUGCAUAUAGAAGGCAAUAGGCCAUUCUGAUCAUAAAGCCAUAAGCACCCAAUGAUUUAUUUAUUGG-GAAUAUGUGUUCAUUUAGCAUGUUUAAGAUUAUUGUGUGCGA
...(((((((((((((((.....))).)))(((((.....((.....)).((((((((.....)))))))-)(((((((.........)))))))...))))).))))))))) ( -31.20)
>DroYak_CAF1 4641 113 - 1
GUUUUGCAUUUAAGAGGCAAUAGGCCAUUCUGAUCAAAAAGCCACAAGCACCCAAUGAUUUAUUUAUUGGGGAAUAUGUGUUCAUUUAGCAUGCUUAAGAUUACUGUGUGCGA
...((((((...((.(((.....)))....(((((...((((.....((.((((((((.....))))))))((((....)))).....))..))))..)))))))..)))))) ( -28.80)
>consensus
GUUUUGCAUAUAAGAGGCAAUAGGCCAUUCCGAUCAUAAAGCCAUAAGCACCCGAUGAUUUAUUUAUUGGGGACUAUGUGUUCAUUUAGCAUGUUUAAGAUUAUUGUGUGCGA
...((((((((((..(((.....)))..................(((((.((((((((.....))))))))......(((((.....))))))))))......)))))))))) (-23.28 = -24.16 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:13 2006