Locus 3350

Sequence ID 2R_DroMel_CAF1
Location 11,372,119 – 11,372,231
Length 112
Max. P 0.931351
window5476

overview

Window 6

Location 11,372,119 – 11,372,231
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 73.84
Mean single sequence MFE -37.67
Consensus MFE -23.82
Energy contribution -24.55
Covariance contribution 0.73
Combinations/Pair 1.56
Mean z-score -1.68
Structure conservation index 0.63
SVM decision value 1.21
SVM RNA-class probability 0.931351
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11372119 112 + 20766785
--------UGUCCACUGCUAACGUUCUAUCAUUACAGAUGUUGGGCAAAUUGGCGGACUCACUAGCUUUGACGCCGAAGAAGGGUAAGCUCCCCUUUUUCUGGGACCCCAAACUAGACAU
--------.((((....(((((((.((........)))))))))((......))))))...((((.((((...(((((((((((.......)))))))))..))....)))))))).... ( -31.70)
>DroSec_CAF1 5112 112 + 1
--------UGUCCACUGCUGACGUUCUAUCAUUACAGAUGUUGGGCAAGUUGGCGGACUCCCUGGCUUUGACGCCGAGGAAGGGCAAGCUGCCCUUUUUCUGGGACCCCAAACUAGACAU
--------((((....((..((..((((.((((...)))).))))...))..))((..((((.(((......)))((((((((((.....)))))))))).))))..))......)))). ( -43.30)
>DroSim_CAF1 5790 112 + 1
--------UGUCCACUGCCGACGUUUUAUCAUUACAGAUGUUGGGCAAGUUGGCGGACUCCCUGGCUUUGACGCCGAAGAAGGGCAAGCUGCCCUUUUUCAGGGACCCUAAACUAGACAU
--------((((..((((((((((((((((......))))..))))..))))))))..((((((((......)))((((((((((.....)))))))))))))))..........)))). ( -45.30)
>DroEre_CAF1 5169 112 + 1
--------UGCCCACUGCUAACGUUCCGUCGCUACAGAUGUUGGGCAAGUUGGCGGACUUACUAGCUUUGACGCCGAGGAAGGGCAGGUUGCCCUACUUCUGGGACCCCAAGCUGGACAU
--------......((((((((((((((((......))))..))))..)))))))).....(((((((.(...((.(((((((((.....)))))..)))).))...).))))))).... ( -40.50)
>DroYak_CAF1 5961 107 + 1
--------U-----CUAAUAAUUUUGAAAUGUUAUAGAUGAUGAGCAAACUGGCGGACUCGUUAGCUUUGACGCCGAGGAAGGGCAGGUUGCCCUUUUUCUGGGACCCCAAACUGGACAU
--------(-----(((.((((........))))))))......(((((((((((....)))))).)))).)(((((((((((((.....))))))))))(((....)))....)).).. ( -30.50)
>DroAna_CAF1 5680 111 + 1
AGCUGACCUGGCCCUGACCAAC---------UUUCAGAUGCUCGACCGGCUGGGCAACACCCUCCGGUUGACCUCUUCCAAGGGCAAGCUGCUUUUCUUUUGGGACCCCAAGCUGGACAU
((((......(((((((.....---------..))(((.(.((((((((..(((.....))).))))))))).)))....))))).)))).....((((((((....)))))..)))... ( -34.70)
>consensus
________UGUCCACUGCUAACGUUCUAUCAUUACAGAUGUUGGGCAAGUUGGCGGACUCCCUAGCUUUGACGCCGAGGAAGGGCAAGCUGCCCUUUUUCUGGGACCCCAAACUAGACAU
..............((((((((..((((.((((...)))).))))...)))))))).....((((.((((...((((((((((((.....))))))))))..))....)))))))).... (-23.82 = -24.55 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:21 2006