Locus 7550

Sequence ID 3R_DroMel_CAF1
Location 20,225,481 – 20,225,596
Length 115
Max. P 0.940387
window12183

overview

Window 3

Location 20,225,481 – 20,225,596
Length 115
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.63
Mean single sequence MFE -45.43
Consensus MFE -25.72
Energy contribution -27.00
Covariance contribution 1.28
Combinations/Pair 1.27
Mean z-score -3.02
Structure conservation index 0.57
SVM decision value 1.29
SVM RNA-class probability 0.940387
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20225481 115 - 27905053
UUAAGCAAAUGCAAGAGCCACCGCUGCUUUUUCGACAGAGGCGGCGCCCAAAUGG-GCGGUG-UUGGGGCGAAAGAGGGCGUGGCAACGCCGCAAGGCAUGCAACAAAUUAAGUGCG
....(((..((((...(((((.(((.((((((((.(...((((.(((((....))-))).))-))...)))))))))))))))))...(((....))).))))..........))). ( -51.70)
>DroSec_CAF1 36765 115 - 1
UUAAGCAAAUGCAAGAGCCACCGUUGCUUUUUCGACAGAGGUGGCGCCAAAAGAG-GCGGUG-UUGGGGCGGAAGAGGGCGUGGCAACGCCGCAAGGCAUGCAACAAAUUAAGUGCG
....(((..((((...((((((.((((......).))).))))))(((.......-((((((-(((..(((........)))..)))))))))..))).))))..........))). ( -41.10)
>DroSim_CAF1 40267 115 - 1
UUAAGCAAAUGCAAGAGCCACCGUUGCUUUUUCGACAGAGGCGGCGCCAAAAGGG-GCGGUG-UUGGGGCGAAAGAGGGCGUGGCAACGCCGCAAGGCAUGCAACAAAUUAAGUGCG
....(((..((((...(((((.(((.((((((((.(...((((.((((......)-))).))-))...)))))))))))))))))...(((....))).))))..........))). ( -45.70)
>DroEre_CAF1 36962 115 - 1
UUAAGCAAAUGCACGAGCCACCGUUGCUUUUUCGCCAGAGACGACGCCCAAAGGG-GCGGGG-UUGUGGCAAAAGGGGGCGUGGCGGCGCCGCAAGGCAUGCAACAAAUUAAGUGCG
..........((((..(((((.(((.((((((.((((..(((..(((((....))-)))..)-)).)))))))))).)))))))).(((((....)))..))..........)))). ( -53.60)
>DroYak_CAF1 37445 117 - 1
UUAAGCAAAUGCAAGCGCCACCGUUGCUUUUUCGCCAGAGGCGUUGCCCAAAGGGGGCGGGGCUUGGGGCGAAAGGGGGCGUGGCGGCGCCGCAAGGCAUGCAACAAAUUAAGUGCG
....(((..((((..((((((.(((.((((((((((..((((.((((((.....)))))).))))..)))))))))))))))))))..(((....))).))))..........))). ( -58.40)
>DroAna_CAF1 37726 93 - 1
UUAUGCAAACGCGAAAACCGCCAACGGA--UUCCACUAAGGG------------G-GCUA---------UGAAAAAGGGCGCGGCAGCCCCUCAAGGCAUGCAACAAAUUAAGUGUG
.(((((...((((....(((((..(...--.........)..------------)-))..---------(....).)).))))((((((......))).)))..........))))) ( -22.10)
>consensus
UUAAGCAAAUGCAAGAGCCACCGUUGCUUUUUCGACAGAGGCGGCGCCCAAAGGG_GCGGUG_UUGGGGCGAAAGAGGGCGUGGCAACGCCGCAAGGCAUGCAACAAAUUAAGUGCG
....(((..((((...(((((.(((.((((((((..........((((......).)))..........))))))))))))))))...(((....))).))))..........))). (-25.72 = -27.00 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:35 2006