Locus 8418

Sequence ID	dm3.chr3L
Location	22,594,492 – 22,594,558
Length	66
Max. P	0.835979

overview

Window 4

Location	22,594,492 – 22,594,558
Length	66
Sequences	5
Columns	70
Reading direction	forward
Mean pairwise identity	82.14
Shannon entropy	0.29808
G+C content	0.46622
Mean single sequence MFE	-17.04
Consensus MFE	-12.64
Energy contribution	-13.44
Covariance contribution	0.80
Combinations/Pair	1.12
Mean z-score	-1.80
Structure conservation index	0.74
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.85
SVM RNA-class probability	0.835979
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22594492 66 + 24543557
ACGG-AGGUAGGUGCUGCAGAGAAUCAUUUCUUAGCACCUACGCUUA---GCACCCCCUAGGAUAUUGAU
....-..((((((((((.(((((....))))))))))))))).((((---(......)))))........ ( -22.70, z-score =  -2.89, R)
>droYak2.chr3L 23042916 62 + 24197627
-----ACGGAUGUGCUUCAGGGAAGUAUUUCUUAGCACCUACACUGA---GCACCCACAAGGAUAUUGAU
-----..((..((((((.(((.(((.....)))....))).....))---)))))).(((.....))).. ( -10.80, z-score =   0.33, R)
>droEre2.scaffold_4784 22249922 65 + 25762168
-----ACGGAUGUGCCCCAAGGAAUCAUUUCUUAGCACCUACACCUACCAGCGCCCACAAGGAUAUUGAU
-----..(...((((....(((((....))))).))))...)......(((..((.....))...))).. (  -7.20, z-score =   1.34, R)
>droSec1.super_11 2516769 67 + 2888827
ACGGUACAUAGGUGCUGCAGAGAAUCAUUUCUUAGCACCUACACUUA---GCACCCCCUAGGAUAUUGAU
.(((((..(((((((((.(((((....))))))))))))))..((((---(......))))).))))).. ( -21.30, z-score =  -3.67, R)
>droSim1.chr3L 21882958 66 + 22553184
ACGG-AAGUAGGUGCUGCAGAGAAUCAUUUCUUAGCACCUACACUUA---GCACCCCCUAGGAUAUUGAU
....-..((((((((((.(((((....))))))))))))))).((((---(......)))))........ ( -23.20, z-score =  -4.13, R)
>consensus
ACGG_ACGUAGGUGCUGCAGAGAAUCAUUUCUUAGCACCUACACUUA___GCACCCCCUAGGAUAUUGAU
.......(((((((((...(((((....))))))))))))))............((....))........ (-12.64 = -13.44 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:45:16 2011