Locus 7420

Sequence ID 3L_DroMel_CAF1
Location 19,972,505 – 19,972,620
Length 115
Max. P 0.935623
window12056

overview

Window 6

Location 19,972,505 – 19,972,620
Length 115
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 91.91
Mean single sequence MFE -30.18
Consensus MFE -25.72
Energy contribution -26.12
Covariance contribution 0.40
Combinations/Pair 1.16
Mean z-score -1.69
Structure conservation index 0.85
SVM decision value 1.25
SVM RNA-class probability 0.935623
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19972505 115 + 23771897
GCUUAAUUAAGCCAACUUGGCAGCCGAGGUGCAUGGCAACCUGCAUUCCGGCAUUUUCUUUCCUUUAAACCAAUUUUCCUCCGGGCUCUCCCAGUUUUCCUGUUUGUGGGACUGC
((((......(((.....))).((((..(((((.(....).)))))..))))..............................)))).....((((((..(.....)..)))))). ( -33.30)
>DroSec_CAF1 63475 115 + 1
GCUUAAUUAAGCCAACUUGGCAGCCGAGGUGCAUGGCAACCUGCAUUCCGGCAUUUUCUUUCCUUUAAAACCUUUUUCCUCCGGACUCUCCCAUUUUUCCUGUUUGUGCGACUGC
((........(((.....))).((((..(((((.(....).)))))..))))..............................((......))...............))...... ( -26.70)
>DroSim_CAF1 22006 115 + 1
GCUUAAUUAAGCCAACUUGGCAGCCGAGGUGCAUGGCAACCUGCAUUCCGGCAUUUUCUUUCCUUUAAAACCUUUUUCCGCCGGGCUCUCCCAUUUUUCCUGUUUGUGGGACUGC
((........(((.....))).((((..(((((.(....).)))))..))))...........................))...((..((((((...........))))))..)) ( -34.30)
>DroEre_CAF1 14405 114 + 1
GCUUAAUUAAGCCAACUUGGCAGCCGAGGUGCAUGGCGACCUGCAUUCCGGUAUUUUCUUUCCUUUCAG-CCACUUUCCCCCGGCCACUCCCACUUUUCCUGUUUGUGGGACUGC
..........(((.....))).((((..(((((.(....).)))))..))))................(-((..........)))((.((((((...........)))))).)). ( -33.20)
>DroYak_CAF1 14540 114 + 1
GCUUAAUUAAGCCAACUUCGCAGCUGAGGUGCAUGACGACCUGCAUUCCGGCAUUUUCUUUCCUUUAAA-CCAUUUUCCUCCGGCCACUCCCAGUUCUCUUGUUUGUGGGACUGC
((((....)))).......(((((((..(((((........)))))..))))........((((.((((-(.........(.((......)).).......))))).)))).))) ( -23.39)
>consensus
GCUUAAUUAAGCCAACUUGGCAGCCGAGGUGCAUGGCAACCUGCAUUCCGGCAUUUUCUUUCCUUUAAA_CCAUUUUCCUCCGGCCUCUCCCAGUUUUCCUGUUUGUGGGACUGC
..........(((.....))).((((..(((((.(....).)))))..))))....................................((((((...........)))))).... (-25.72 = -26.12 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:36 2006