Locus 537

Sequence ID 2L_DroMel_CAF1
Location 1,675,373 – 1,675,493
Length 120
Max. P 0.588158
window858

overview

Window 8

Location 1,675,373 – 1,675,493
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 97.08
Mean single sequence MFE -41.23
Consensus MFE -40.20
Energy contribution -39.45
Covariance contribution -0.75
Combinations/Pair 1.11
Mean z-score -1.52
Structure conservation index 0.98
SVM decision value 0.11
SVM RNA-class probability 0.588158
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1675373 120 + 22407834
AGGCGUUGCAGUUGAGUCCUGCGGCCAACGCUCAUUUCGGGAAAUGUGAAUUCGAUUAAAGUAAUGACUUUUUGAGUAGUCCUUUGGGGCGGAUAAGUUGGGCGAGCUCAGGUGUUUCGC
..(((..(((.((((((....((.(((((.(.(((((....))))).).((((((..(((((....))))))))))).((((....))))......))))).)).)))))).)))..))) ( -39.70)
>DroSec_CAF1 1831 120 + 1
AGGCGUUGCAGUUGAGUCCUGCGGCCAACGCUCAUUUCGGGAAAUGCGAAUUCGAUUAAAGUAAUGACUUUUUGAGUAGCCCUUUGGGGCGGAGAAGUUGGGCGAGCUCAGGUGUUUCGC
..(((..(((.((((((....((.(((((.(((...(((.......)))((((((..(((((....))))))))))).((((....)))).)))..))))).)).)))))).)))..))) ( -43.60)
>DroSim_CAF1 2719 120 + 1
AGGCGUUGCAGUUGAGUCCUGCGGCCAACGCUCAUUUCGGGAAAUGCGAAUUCGAUUAAAGUAAUGACUUUUUGAGUAGUCCUUUGGGGCGGAGAAGUUGGGCGAGCUCAGGUGUUUCGC
..(((..(((.((((((....((.(((((.(((...(((.......)))((((((..(((((....))))))))))).((((....)))).)))..))))).)).)))))).)))..))) ( -40.90)
>DroYak_CAF1 2857 120 + 1
AGGCGUUGCAGUUGAGUCCUGCGGCCGACGUUCAUUUCGGGAAAUGCGAAUUCGAUUAAAGUAAUGACUUUUUGAGUAGUCCUUUGGGGCGUCGAAGUUGGGCGAGCUCAGGUGUUUCGC
..(((..(((.((((((....((.(((((...(((((....)))))(((((((((..(((((....))))))))))).((((....)))).)))..))))).)).)))))).)))..))) ( -40.70)
>consensus
AGGCGUUGCAGUUGAGUCCUGCGGCCAACGCUCAUUUCGGGAAAUGCGAAUUCGAUUAAAGUAAUGACUUUUUGAGUAGUCCUUUGGGGCGGAGAAGUUGGGCGAGCUCAGGUGUUUCGC
..(((..(((.((((((....((.((((((((((.((((.......)))).......(((((....))))).))))).((((....))))......))))).)).)))))).)))..))) (-40.20 = -39.45 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:37 2006