Locus 8556

Sequence ID 3L_DroMel_CAF1
Location 22,333,095 – 22,333,206
Length 111
Max. P 0.789439
window14025

overview

Window 5

Location 22,333,095 – 22,333,206
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.84
Mean single sequence MFE -25.41
Consensus MFE -4.46
Energy contribution -5.88
Covariance contribution 1.42
Combinations/Pair 1.15
Mean z-score -1.74
Structure conservation index 0.18
SVM decision value 0.58
SVM RNA-class probability 0.789439
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22333095 111 + 23771897
AGCCAAGUGCAUGAAAAUAGUUGUCGAAAAGUUUUCCCAACAGUCGCCAAGCGGAGGAAACGACGAAAGAGUUAGAGUAAAUCAUUGUG---------GGGAAAAUCCAGCUGGCGGAAA
.((((...((((....))............((((((((.(((((.......((..(....)..)).........((.....))))))).---------))))))))...))))))..... ( -25.10)
>DroPse_CAF1 29751 102 + 1
--CCAAGUGCAUGAAAAUAGUUUGGGGAAAACUUUUCCAGCAGAAGAAAAGCCGGGAAA-----AAAAGAGUUAAAGUAAAUCAUUCCCAAAAAGGGGUGGCACAUCCC-----------
--....((((..........((((((((....((((((.((.........)).))))))-----....((...........)).))))))))........)))).....----------- ( -21.47)
>DroSim_CAF1 576 111 + 1
AGCCAAGUGCAUGAAAAUAGUUGGCGAAAAGUUUUCCCAGCAGUCGCCAAGCGGAGGAAACGACGAAAGAGUUAGAGUAAAUCAUUGUG---------GGGAAAAUCCAGCUGGCGGAAA
.(((......((....))((((((......((((((((.(((((.......((..(....)..)).........((.....))))))).---------)))))))))))))))))..... ( -29.60)
>DroEre_CAF1 565 111 + 1
AGCCAAGUGCAUGAAAAUAGUUGGCAAAAAGUUUUCCCAACAGUCGCCAAGCGAAGGAAACGACGAAAGAGUUAGAGUAAAUCAUUGUG---------GGGAAAAUCCAGCUGGCGGAAA
.(((......((....))((((((......((((((((.((((((((...)))).(....)..(....)...............)))).---------)))))))))))))))))..... ( -28.90)
>DroPer_CAF1 30234 103 + 1
--CCAAGUGCAUGAAAAUAGUUUGGGGAAAACUUUUCCAGCAGAAGAAAAGCCGGAAAAA----AAAAGAGUUAAAGUAAAUCAUUCCCAAAAAGGGGUGGCACAUCCC-----------
--....((((..........((((((((....((((((.((.........)).)))))).----....((...........)).))))))))........)))).....----------- ( -21.97)
>consensus
AGCCAAGUGCAUGAAAAUAGUUGGCGAAAAGUUUUCCCAGCAGUCGCCAAGCGGAGGAAACGACGAAAGAGUUAGAGUAAAUCAUUGUG_________GGGAAAAUCCAGCUGGCGGAAA
.((((..............(((((..((....))..)))))..........................................................((.....))...))))..... ( -4.46 =  -5.88 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:58 2006