Locus 1861

Sequence ID 3L_DroMel_CAF1
Location 5,223,727 – 5,223,839
Length 112
Max. P 0.539439
window2900

overview

Window 0

Location 5,223,727 – 5,223,839
Length 112
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 93.63
Mean single sequence MFE -15.20
Consensus MFE -12.34
Energy contribution -12.42
Covariance contribution 0.08
Combinations/Pair 1.10
Mean z-score -1.38
Structure conservation index 0.81
SVM decision value 0.01
SVM RNA-class probability 0.539439
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5223727 112 + 23771897
AGGCCUACGCCAUAAACAUAAACUUCCAUAA-AUUCGCAUAAAAAUAAUAAAGCUUUUGCCACAUAACUCCCUAAUUUAUGCGAAUGCCCCUCUCUCAGAAGGUGUCAACUUU
.(((....)))....................-(((((((((((.........((....))....((......)).)))))))))))((((.((.....)).)).))....... ( -17.20)
>DroSec_CAF1 88221 112 + 1
AGGCCUAGCCCAUAAAAAUAAACUUCCAUAAAAUUCGCAUAAAAAUAAUAAAGCGUUUGCCACAUAACUCCCUAAUUUAUGCG-AUGCCCCUCUCUCAGAAGGUGUCAACUUU
.(((...)))..........................(((((((.........((....))....((......)).)))))))(-(((((..((.....)).))))))...... ( -13.90)
>DroSim_CAF1 85331 113 + 1
AGGCCUAGCCCAUAAAAAUAAACUUCCAUAAAAUUCGCAUAAAAAUAAUAAAGCUUUUGCCACAUAACUCCCUAAUUUAUGCGAAUGCCCCUCUCUCAGAAGGUGUCAACUUU
.(((...)))......................(((((((((((.........((....))....((......)).)))))))))))((((.((.....)).)).))....... ( -15.30)
>DroEre_CAF1 89732 113 + 1
ACGCCUAGCCCAUAAAAAUAAACUUCCAUAAAAUUCGCAUAAAAAUAAUAAAGCUUUUGCCACAUAACUGCCUAAUUUAUGCGAAUGCCCCUCCCUCAAAAGGUGCCAACUUU
................................(((((((((((.........((....))..((....)).....)))))))))))((.(((........))).))....... ( -15.20)
>DroYak_CAF1 90383 112 + 1
AGACCAAGCCCAUAAAAAA-AAAUUCCAUAAAAUUCGCAUAAAAAUAAUAAAGCUUUUGCCACAUAACUCCCUAAUUUAUGCGAAUGCCCCUCCCUCUAAAGGUGUCAACUUU
.(((...............-............(((((((((((.........((....))....((......)).))))))))))).......(((....))).)))...... ( -14.40)
>consensus
AGGCCUAGCCCAUAAAAAUAAACUUCCAUAAAAUUCGCAUAAAAAUAAUAAAGCUUUUGCCACAUAACUCCCUAAUUUAUGCGAAUGCCCCUCUCUCAGAAGGUGUCAACUUU
.(((............................(((((((((((.........((....))....((......)).)))))))))))...(((........))).)))...... (-12.34 = -12.42 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:30 2006