Locus 1827

Sequence ID 3L_DroMel_CAF1
Location 5,119,525 – 5,119,645
Length 120
Max. P 0.513192
window2854

overview

Window 4

Location 5,119,525 – 5,119,645
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 90.00
Mean single sequence MFE -56.07
Consensus MFE -48.27
Energy contribution -48.50
Covariance contribution 0.23
Combinations/Pair 1.08
Mean z-score -1.68
Structure conservation index 0.86
SVM decision value -0.04
SVM RNA-class probability 0.513192
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5119525 120 + 23771897
UGGGUGCGGCCGUGGGCCUCGUUCCGCGCGCUUCCGACCUGGUGAUGUCAGGUCCUCCGGGCCUGAAAUUCAUGUUGGAACCGGAGGAGGAGGGACUUCCCGCAGUACCGCCCAAAUUUG
((((((..((.(((((((((.((((.(.((.(((((((...((((..((((((((...))))))))...))))))))))).))).)))))))).....))))).))..))))))...... ( -56.30)
>DroSim_CAF1 29 120 + 1
UGGGUGCGGCCGUGGGCCUCGUUCCACGCGCCUCCGACCUGGUAAUGUCGGGUCCUCCUGGCCUGAAAUUCAUGUUGGAACCGGAGGAGGAGGGACUUCCCGCAUUGGCGCCCAAAUUGG
((((((((((((((((......)))))).)))((((((.(((.....(((((.((....)))))))...))).))))))..(((.((((......))))))).....)))))))...... ( -53.90)
>DroYak_CAF1 81 117 + 1
UGGGUGCGGCGGUGGGUCUCGUUCCGCGCGCCUCCGACCUGGUGAUGUCCGGUCCUCCUGGCCGGAAAUUCAUGUUGGAACCGGAG---GAGGGACUGCCCGCAGUGCCGCCCAAGUUAG
..((.(((((.((((((...(((((.....((((((.((..((((..(((((.((....)))))))...))))...))...)))))---).))))).))))))...)))))))....... ( -58.00)
>consensus
UGGGUGCGGCCGUGGGCCUCGUUCCGCGCGCCUCCGACCUGGUGAUGUCAGGUCCUCCUGGCCUGAAAUUCAUGUUGGAACCGGAGGAGGAGGGACUUCCCGCAGUGCCGCCCAAAUUAG
((((((..((.(((((....(((((.....((((((.((..((((..(((((((.....)))))))...))))...))...))))))....)))))..))))).))..))))))...... (-48.27 = -48.50 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:46 2006