Locus 6683

Sequence ID dm3.chr3L
Location 8,838,476 – 8,838,548
Length 72
Max. P 0.500000
window9199

overview

Window 9

Location 8,838,476 – 8,838,548
Length 72
Sequences 5
Columns 72
Reading direction forward
Mean pairwise identity 84.03
Shannon entropy 0.28564
G+C content 0.52757
Mean single sequence MFE -20.04
Consensus MFE -14.42
Energy contribution -15.98
Covariance contribution 1.56
Combinations/Pair 1.22
Mean z-score -1.49
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3L 8838476 72 + 24543557
GCAGGGUGUGGUAAAAGUGAGGGGGUAAGGGGGAGCGGAACUGAGACAUUCUGACCUCUUGGCAUUCAUGGA
................(((((..(.(((((((...(((((........))))).))))))).).)))))... ( -18.50, z-score =  -0.50, R)
>droEre2.scaffold_4784 20557665 71 - 25762168
ACGGGGUGUGGGGAGAACGAAGGGGUCAGGGG-AGCGGAACAGAAACAUUCUGACCUCUUGGCAUUCAUGGA
...((((((.((((...(....)((((((((.-..(......).....)))))))))))).))))))..... ( -21.50, z-score =  -1.44, R)
>droYak2.chr3L 21121712 58 - 24197627
GCAGGGUGUGGAGAAAAUGAAGGGG--------------ACAGAAACAUUCUGACCUCUUAACAUUCAUGGA
...((((((..........((((((--------------.((((.....)))).)))))).))))))..... ( -15.20, z-score =  -1.51, R)
>droSec1.super_0 1109271 71 + 21120651
ACAGGGUGUGGGGAAAGUGAAGGGGUCAGGGG-AGCGGAACAGAAACAUUCUGACCUCUUGGCAUUCAUGGA
............(((.((.((((((((((((.-..(......).....)))))))))))).)).)))..... ( -22.50, z-score =  -2.03, R)
>droSim1.chr3L 8277370 71 + 22553184
GCAGGGUGUGGGGAAAGUGAAGGGGUCAGGGG-AGCGGAACAGAAACAUUCUGACCUCUUGGCAUUCAUGGA
............(((.((.((((((((((((.-..(......).....)))))))))))).)).)))..... ( -22.50, z-score =  -1.96, R)
>consensus
GCAGGGUGUGGGGAAAGUGAAGGGGUCAGGGG_AGCGGAACAGAAACAUUCUGACCUCUUGGCAUUCAUGGA
............(((.((.((((((((((((....(......).....)))))))))))).)).)))..... (-14.42 = -15.98 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:12:29 2011