Locus 1440

Sequence ID 3L_DroMel_CAF1
Location 4,162,526 – 4,162,620
Length 94
Max. P 0.517371
window2245

overview

Window 5

Location 4,162,526 – 4,162,620
Length 94
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 80.80
Mean single sequence MFE -18.58
Consensus MFE -12.03
Energy contribution -12.85
Covariance contribution 0.82
Combinations/Pair 1.15
Mean z-score -1.39
Structure conservation index 0.65
SVM decision value -0.03
SVM RNA-class probability 0.517371
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4162526 94 - 23771897
AACCAAUCAAACAAACAAUUGUAUAGAACCGAAUCCGCUCCAGGCCGCUCCAAAACACGGCGAAGAUUCAUAAAAACGGGGCGGUACGAACUCC
..........((((....)))).......((...(((((((..((((..........))))((....))........)))))))..))...... ( -20.50)
>DroSec_CAF1 8263 94 - 1
AACCAAUCAAACAAACAAUUGUAUAGAACCGAAUCCGCUCCAGGCCGCUCCAAAGCACGGCGAAGAUUCAUAGAAACGGGGCGGUACGAACUCC
..........((((....)))).......((...(((((((..((((((....)))..)))((....))........)))))))..))...... ( -20.80)
>DroSim_CAF1 12617 94 - 1
AACCAAUCAAACAAACAAUUGUAUAGAACCGAAUCCGCUCCAGGCCGCUCCAAGACACGGCGAAGAUUCAUAGAAACGGGGCGGUACCAACUCC
..........((((....))))............(((((((..((((..........))))((....))........))))))).......... ( -19.00)
>DroEre_CAF1 8355 91 - 1
AACCAAUCAAACAAACAAUUGUAUAGAACCGAAUCCGCUCCAGGCCGC---GAAACUCGGCGAAGAUUCAUAGAAACGGGGCGGUACGAACUCC
..........((((....)))).......((...(((((((..((((.---......))))((....))........)))))))..))...... ( -20.50)
>DroWil_CAF1 16672 79 - 1
AAAAAAU----CAAAUUAUUGUACAGAAAAAAAUUUUCUU-AGGC-------AAGCGGAGGGAACACUAAAAGAACA---ACAACAAAAAUACC
......(----(...((.((((..(((((.....))))).-..))-------))...))..))..............---.............. (  -5.50)
>DroYak_CAF1 12302 91 - 1
AACCAAUCAAACAAACAAUUGUAUAGAACCGAAUCCGCUCCAGGCCGC---AAAACGCGGCGAAGAUUCAUAGAAACGGGGCGGUACGAACUCC
..........((((....)))).......((...(((((((..(((((---.....)))))((....))........)))))))..))...... ( -25.20)
>consensus
AACCAAUCAAACAAACAAUUGUAUAGAACCGAAUCCGCUCCAGGCCGC___AAAACACGGCGAAGAUUCAUAGAAACGGGGCGGUACGAACUCC
..................................(((((((..((((..........))))((....))........))))))).......... (-12.03 = -12.85 +   0.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:43 2006