Locus 1023

Sequence ID 3L_DroMel_CAF1
Location 3,016,062 – 3,016,156
Length 94
Max. P 0.839733
window1579

overview

Window 9

Location 3,016,062 – 3,016,156
Length 94
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 93.38
Mean single sequence MFE -15.30
Consensus MFE -13.40
Energy contribution -13.65
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.88
SVM decision value 0.75
SVM RNA-class probability 0.839733
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3016062 94 + 23771897
AGGAGAAAAACACCCAGGCAACGCAACUGUAAAAACACAAAUCGUUUGUGUGGAAUGCAAAAAUAAUUUGCAAAUCAAAGAUUGAUGCAGAAAA
.((..........)).(....)....(((((...((((((.....))))))....((((((.....)))))).............))))).... ( -16.10)
>DroSec_CAF1 50233 89 + 1
AGGAGAAAAACACCCCGGC-----AACUGUAAAAACACAAAUCGUUUGUGUGGAAUGCAAAAAUAAUUUGCAAAUCAAAGAUUGAUGCAGAAAA
.((.(........)))...-----..(((((...((((((.....))))))....((((((.....)))))).............))))).... ( -15.30)
>DroSim_CAF1 50961 89 + 1
AGGAGAAAAACACCCAGGC-----AACUGUAAAAACACAAAUCGUUUGUGUGGAAUGCAAAAAUAAUUUGCAAAUCAAAGAUUGAUGCAGAAAA
............(((((..-----..))).....((((((.....))))))))..((((((.....)))))).((((.....))))........ ( -15.70)
>DroYak_CAF1 52340 94 + 1
AGGAGAAAGAAACCCAUGCCUCGCAACUGUAAAAACACAAAUCGUUUGUGUGGAAUGCAAAAAUAAUUUGCAAAUCAAAGAUUGAUGCAAAAAA
.((..........)).(((.((............((((((.....))))))....((((((.....))))))...........)).)))..... ( -14.10)
>consensus
AGGAGAAAAACACCCAGGC_____AACUGUAAAAACACAAAUCGUUUGUGUGGAAUGCAAAAAUAAUUUGCAAAUCAAAGAUUGAUGCAGAAAA
..........................(((((...((((((.....))))))....((((((.....)))))).............))))).... (-13.40 = -13.65 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:04 2006