Locus 5973

Sequence ID dm3.chr3L
Location 2,869,348 – 2,869,422
Length 74
Max. P 0.883607
window8216

overview

Window 6

Location 2,869,348 – 2,869,422
Length 74
Sequences 6
Columns 81
Reading direction reverse
Mean pairwise identity 69.47
Shannon entropy 0.56381
G+C content 0.55065
Mean single sequence MFE -22.12
Consensus MFE -10.80
Energy contribution -11.50
Covariance contribution 0.70
Combinations/Pair 1.36
Mean z-score -1.51
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.06
SVM RNA-class probability 0.883607
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 2869348 74 - 24543557
CUCAGAUCCUGUCCCACCGAAUCG-------AAGUACGAAAGCGGUGGGGAGUAUCCCACAGAUUCAUUCACGGGCAGCGC
........(((((((((((..(((-------.....)))...)))))(((.....)))..............))))))... ( -23.50, z-score =  -1.43, R)
>droSim1.chr3L 2422350 74 - 22553184
CUCAGAUCCUGUCCCACCGAAUCG-------AAGUACGAAAGCGGUGGGGAGUAUCCCACAGAUUCAUUCACGGGCAGCGC
........(((((((((((..(((-------.....)))...)))))(((.....)))..............))))))... ( -23.50, z-score =  -1.43, R)
>droSec1.super_2 2889512 74 - 7591821
CUCAGAUCCUGUCCCAUCGAAUCG-------AAGUACGAAGGCGGUGGGGAGUAUCCCACAGAUUCAUUCACGGGCAGCGC
........((((((....(((((.-------.....((....))(((((......))))).)))))......))))))... ( -21.10, z-score =  -0.31, R)
>droYak2.chr3L 15135924 62 + 24197627
CUCAGAUCCAAUCCCAUCG-------------------AAAGCGGUGGGGAGUAUCCCACAGAUUCAUUCACGGGCAGCGC
...........((((((((-------------------....)))))))).((..(((...((.....))..)))..)).. ( -15.90, z-score =  -0.54, R)
>droEre2.scaffold_4784 2895882 81 - 25762168
CUCAGAUUCUAUCCCACCGCUUCGCAUGCCCAAGUACGAAAGCGGUGGGGAGUAUCCCACAGAUUCAUUCACGGGCAGCGC
...........(((((((((((((.((......)).)).))))))))))).((..(((...((.....))..)))..)).. ( -25.90, z-score =  -1.84, R)
>droMoj3.scaffold_6680 2882901 64 + 24764193
-----AUUCCAUUCUGGCCAGUUG---------GCCAUUCAGUUUUUAAGAUUUUCCCAGGCUCGGAUUCGAGCUUGG---
-----.........(((((....)---------))))...................(((((((((....)))))))))--- ( -22.80, z-score =  -3.48, R)
>consensus
CUCAGAUCCUAUCCCACCGAAUCG_______AAGUACGAAAGCGGUGGGGAGUAUCCCACAGAUUCAUUCACGGGCAGCGC
........(((((((((((.......................)))))(((.....)))..............))))))... (-10.80 = -11.50 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:58:48 2011