Locus 1342

Sequence ID dm3.chr2L
Location 10,441,867 – 10,441,920
Length 53
Max. P 0.921945
window1831

overview

Window 1

Location 10,441,867 – 10,441,920
Length 53
Sequences 6
Columns 53
Reading direction forward
Mean pairwise identity 91.07
Shannon entropy 0.17471
G+C content 0.37107
Mean single sequence MFE -11.98
Consensus MFE -10.87
Energy contribution -10.98
Covariance contribution 0.11
Combinations/Pair 1.19
Mean z-score -1.78
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.29
SVM RNA-class probability 0.921945
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10441867 53 + 23011544
AGCUUAAGUCCGGAUUCAGUUCUGCUAAAUUAUAACCAAUUUGGACUCCAUAA
......((((((((((..(((.((......)).))).))))))))))...... (  -9.30, z-score =  -1.34, R)
>droAna3.scaffold_12916 14283061 53 + 16180835
AGCUGAAUUCCGACUUGAGUUGUGUUGAAUUAUAACCAAUUUAGGAACUAUAA
.............(((((((((.((((.....)))))))))))))........ (  -9.40, z-score =  -1.73, R)
>droEre2.scaffold_4929 11650881 53 - 26641161
AGCUCAAGUCCGGAUUGAGUUCUGCUAAAUUAUAACCAAUUUGGGCUCCAUAA
......(((((((((((.(((.((......)).))))))))))))))...... ( -13.30, z-score =  -1.89, R)
>droYak2.chr2L 6847002 53 + 22324452
AGCUCAAGUCCGGAUUGAGUUCUGCUAAAUUAUAACCAAUUUGGGCUCCAUAA
......(((((((((((.(((.((......)).))))))))))))))...... ( -13.30, z-score =  -1.89, R)
>droSec1.super_3 5869828 53 + 7220098
AGCUUAAGUCCGGAUUGAGUUCUGCUAAAUUAUAACCAAUUUGGGCUCCAUAA
......(((((((((((.(((.((......)).))))))))))))))...... ( -13.30, z-score =  -1.92, R)
>droSim1.chr2L 10236063 53 + 22036055
AGCUUAAGUCCGGAUUGAGUUCUGCUAAAUUAUAACCAAUUUGGGCUCCAUAA
......(((((((((((.(((.((......)).))))))))))))))...... ( -13.30, z-score =  -1.92, R)
>consensus
AGCUUAAGUCCGGAUUGAGUUCUGCUAAAUUAUAACCAAUUUGGGCUCCAUAA
......(((((((((((.(((.((......)).))))))))))))))...... (-10.87 = -10.98 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:30:08 2011