Locus 3816

Sequence ID 3L_DroMel_CAF1
Location 11,005,522 – 11,005,625
Length 103
Max. P 0.783503
window5944

overview

Window 4

Location 11,005,522 – 11,005,625
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.48
Mean single sequence MFE -20.07
Consensus MFE -14.70
Energy contribution -14.78
Covariance contribution 0.08
Combinations/Pair 1.04
Mean z-score -2.09
Structure conservation index 0.73
SVM decision value 0.56
SVM RNA-class probability 0.783503
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11005522 103 + 23771897
----------------AGCGGCGUCCGCAUUAAUAUUAAUUAAAUAAACGUUAAUUCAGCGCAUUAAUGCGUAAUAAAUAAUGCUCUUUUGAG-CUGAAAUUAAUGCAUAAAACGCUACU
----------------((..((((..((((((((.(((....................(((((....)))))..........((((....)))-)))).)))))))).....))))..)) ( -25.10)
>DroPse_CAF1 145850 120 + 1
GAACAACUUCAACAGUAAUAUCAGCGGCAUUAAUAUUAAUUAAAUAAACGUUAAUUCAGCGCAUUAAUGCGUAAUAAAUAAUGCUCUUUUGAGGCAAAAAUUAAUGCAUAAAACGCUACU
......................((((((((((((..............(((((.((..(((((....)))))...)).)))))(((....)))......))))))))......))))... ( -19.60)
>DroGri_CAF1 116797 103 + 1
----------------UGCUGCGCCAGCAUUAAUAUUAAUUAAAUAAACGUUAAUUCAGCGCAUUAAUGCGUAAUAAAUAAUGUCACUCUGAGGCAAAAAUUAAUGCAUA-AACGCUACU
----------------....(((...((((((((........................(((((....))))).........((((.......))))...))))))))...-..))).... ( -18.30)
>DroSim_CAF1 136823 92 + 1
---------------------------CAUUAAUAUUAAUUAAAUAAACGUUAAUUCAGCGCAUUAAUGCGUAAUAAAUAAUGCUCUUUUGAG-CUGAAAUUAAUGCAUAAAACGCUACU
---------------------------.....................((((((((((((.((..(..((((........))))..)..)).)-))).)))))))).............. ( -16.50)
>DroAna_CAF1 132433 103 + 1
----------------CACAACGGUCGCAUUAAUAUUAAUUAAAUAAACGUUAAUUCAGCGCAUUAAUGCGUAAUAAAUAAUGCUCUUUUGAG-CAGAAAUUAAUGCAUAAAACGCUACU
----------------..........((((((((........................(((((....))))).........(((((....)))-))...))))))))............. ( -21.30)
>DroPer_CAF1 135025 120 + 1
GAACAACUUCAACAGUAAUAUCAGCGGCAUUAAUAUUAAUUAAAUAAACGUUAAUUCAGCGCAUUAAUGCGUAAUAAAUAAUGCUCUUUUGAGGCAAAAAUUAAUGCAUAAAACGCUACU
......................((((((((((((..............(((((.((..(((((....)))))...)).)))))(((....)))......))))))))......))))... ( -19.60)
>consensus
________________AACAGCGGCCGCAUUAAUAUUAAUUAAAUAAACGUUAAUUCAGCGCAUUAAUGCGUAAUAAAUAAUGCUCUUUUGAG_CAAAAAUUAAUGCAUAAAACGCUACU
..........................((((((((.((..(((((....(((((.((..(((((....)))))...)).)))))....)))))....)).))))))))............. (-14.70 = -14.78 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:17 2006