Locus 1257

Sequence ID	dm3.chr2L
Location	9,527,929 – 9,528,031
Length	102
Max. P	0.989789

overview

Window 3

Location	9,527,929 – 9,528,031
Length	102
Sequences	4
Columns	104
Reading direction	forward
Mean pairwise identity	97.26
Shannon entropy	0.04263
G+C content	0.58148
Mean single sequence MFE	-39.80
Consensus MFE	-39.30
Energy contribution	-39.30
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.47
Structure conservation index	0.99
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.39
SVM RNA-class probability	0.989789
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 9527929 102 + 23011544
GCUUGGCAAGAUAUCUGGGUGGGUGGCUCGAAUACUUCGCGGAAGCCCCUUUCAUUUGGG-CCAAACCGAGCCAAACACCAGCAAACCGAUCCGAGCCAA-CGC
((((((...........((((..(((((((........((....))(((........)))-......)))))))..))))...........))))))...-... ( -39.05, z-score =  -2.60, R)
>droSim1.chr2L 9299915 103 + 22036055
GCUUGGCAAGACAUCUGGGUGGGUGGCUCGAACACUUCGCGGAAGCCCCUUUCAUUUGGGGCCAAACCGAGCCAAACACCAGCAAACCGAUCCGAGCCAA-CGC
((((((...........((((..((((((((.....))..((..(((((........)))))....))))))))..))))...........))))))...-... ( -40.55, z-score =  -2.42, R)
>droSec1.super_3 4974526 103 + 7220098
GCUUGGCAAGACAUCUGGGUGGGUGGCUCGAACACUUCGCGGAAGCCCCUUUCAUUUGGGGCCAAACCGAGCCAAACACCAGCAAACCGAUCCGAGCCAA-CGC
((((((...........((((..((((((((.....))..((..(((((........)))))....))))))))..))))...........))))))...-... ( -40.55, z-score =  -2.42, R)
>droYak2.chr2L 12203625 103 + 22324452
GCUUGGCAAGACAUCUGGGUGGGUGGCUCGAAUACUUCGCGGAAGCCCCUUUCAUUUGGG-CCAAUCCGAGCCAAACACCAGCAAACCGAUCCGAGCCAAACGC
((((((...........((((..(((((((........((....))(((........)))-......)))))))..))))...........))))))....... ( -39.05, z-score =  -2.45, R)
>consensus
GCUUGGCAAGACAUCUGGGUGGGUGGCUCGAACACUUCGCGGAAGCCCCUUUCAUUUGGG_CCAAACCGAGCCAAACACCAGCAAACCGAUCCGAGCCAA_CGC
((((((...........((((..(((((((........((....))(((........))).......)))))))..))))...........))))))....... (-39.30 = -39.30 +   0.00)

alignment

secondary structure

dotplot

Window 4

Location	9,527,929 – 9,528,031
Length	102
Sequences	4
Columns	104
Reading direction	reverse
Mean pairwise identity	97.26
Shannon entropy	0.04263
G+C content	0.58148
Mean single sequence MFE	-43.60
Consensus MFE	-39.74
Energy contribution	-40.05
Covariance contribution	0.31
Combinations/Pair	1.03
Mean z-score	-2.34
Structure conservation index	0.91
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.50
SVM RNA-class probability	0.944513
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 9527929 102 - 23011544
GCG-UUGGCUCGGAUCGGUUUGCUGGUGUUUGGCUCGGUUUGG-CCCAAAUGAAAGGGGCUUCCGCGAAGUAUUCGAGCCACCCACCCAGAUAUCUUGCCAAGC
((.-(((((..((((..(((((..((((..((((((((...((-(((.........))))).))..((.....))))))))..))))))))))))).))))))) ( -40.50, z-score =  -1.85, R)
>droSim1.chr2L 9299915 103 - 22036055
GCG-UUGGCUCGGAUCGGUUUGCUGGUGUUUGGCUCGGUUUGGCCCCAAAUGAAAGGGGCUUCCGCGAAGUGUUCGAGCCACCCACCCAGAUGUCUUGCCAAGC
((.-(((((..((((..(((((..((((..((((((((...((((((........)))))).))..((.....))))))))..))))))))))))).))))))) ( -45.00, z-score =  -2.48, R)
>droSec1.super_3 4974526 103 - 7220098
GCG-UUGGCUCGGAUCGGUUUGCUGGUGUUUGGCUCGGUUUGGCCCCAAAUGAAAGGGGCUUCCGCGAAGUGUUCGAGCCACCCACCCAGAUGUCUUGCCAAGC
((.-(((((..((((..(((((..((((..((((((((...((((((........)))))).))..((.....))))))))..))))))))))))).))))))) ( -45.00, z-score =  -2.48, R)
>droYak2.chr2L 12203625 103 - 22324452
GCGUUUGGCUCGGAUCGGUUUGCUGGUGUUUGGCUCGGAUUGG-CCCAAAUGAAAGGGGCUUCCGCGAAGUAUUCGAGCCACCCACCCAGAUGUCUUGCCAAGC
..(((((((..((((..(((((..((((..((((((((((...-(((........)))(((((...)))))))))))))))..))))))))))))).))))))) ( -43.90, z-score =  -2.56, R)
>consensus
GCG_UUGGCUCGGAUCGGUUUGCUGGUGUUUGGCUCGGUUUGG_CCCAAAUGAAAGGGGCUUCCGCGAAGUAUUCGAGCCACCCACCCAGAUGUCUUGCCAAGC
....(((((..((((..(((((..((((..((((((((...((((((........)))))).))..((.....))))))))..))))))))))))).))))).. (-39.74 = -40.05 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:28:29 2011