Locus 2092

Sequence ID dm3.chr2L
Location 16,254,832 – 16,254,886
Length 54
Max. P 0.516617
window2876 window2877

overview

Window 6

Location 16,254,832 – 16,254,886
Length 54
Sequences 4
Columns 62
Reading direction forward
Mean pairwise identity 62.93
Shannon entropy 0.57088
G+C content 0.45012
Mean single sequence MFE -13.95
Consensus MFE -4.11
Energy contribution -3.68
Covariance contribution -0.44
Combinations/Pair 1.38
Mean z-score -2.04
Structure conservation index 0.29
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.00
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr2L 16254832 54 + 23011544
--------UUCGCAACUCUCAUGCUACUUCGAUAUUUCUAAUUAGCGAGUUCUUGACUUCUU
--------.(((.(((((....((((.((.((....)).)).)))))))))..)))...... (  -7.10, z-score =  -0.81, R)
>droSim1.chr2L 15964407 54 + 22036055
--------UUCGCAACUCUCAUGCUACUUCGACGUUUCUAAUUAGCGAGUUCUUGAGUUGCU
--------...(((((((.(.(((((.((.((....)).)).))))).).....))))))). ( -14.20, z-score =  -2.13, R)
>droSec1.super_5 4976400 54 + 5866729
--------UUCGCAACUCUCUUGCUACUUCGACAUUUCUAAUUAGCGAGUUCUUGAGUUGCU
--------...(((((((.(((((((.((.((....)).)).))))))).....))))))). ( -18.70, z-score =  -4.66, R)
>droAna3.scaffold_12916 144444 62 + 16180835
GUCGCAACUCCUCGGCUGCCAAUCAGCUCCGCUUUUUCUGCCCCAGGAGCUGCCGUUUGAAC
...(((.(((((.(((((.....)))))..((.......))...))))).)))......... ( -15.80, z-score =  -0.57, R)
>consensus
________UUCGCAACUCUCAUGCUACUUCGACAUUUCUAAUUAGCGAGUUCUUGAGUUGCU
.............(((((....((((.((.((....)).)).)))))))))........... ( -4.11 =  -3.68 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,254,832 – 16,254,886
Length 54
Sequences 4
Columns 62
Reading direction reverse
Mean pairwise identity 62.93
Shannon entropy 0.57088
G+C content 0.45012
Mean single sequence MFE -15.97
Consensus MFE -5.26
Energy contribution -4.70
Covariance contribution -0.56
Combinations/Pair 1.40
Mean z-score -1.82
Structure conservation index 0.33
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.04
SVM RNA-class probability 0.516617
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16254832 54 - 23011544
AAGAAGUCAAGAACUCGCUAAUUAGAAAUAUCGAAGUAGCAUGAGAGUUGCGAA--------
...........(((((((((....((....))....))))....))))).....-------- (  -7.70, z-score =   0.07, R)
>droSim1.chr2L 15964407 54 - 22036055
AGCAACUCAAGAACUCGCUAAUUAGAAACGUCGAAGUAGCAUGAGAGUUGCGAA--------
.(((((((..(....)((((....((....))....))))....)))))))...-------- ( -15.80, z-score =  -2.39, R)
>droSec1.super_5 4976400 54 - 5866729
AGCAACUCAAGAACUCGCUAAUUAGAAAUGUCGAAGUAGCAAGAGAGUUGCGAA--------
.(((((((..(....)((((....((....))....))))....)))))))...-------- ( -15.80, z-score =  -2.70, R)
>droAna3.scaffold_12916 144444 62 - 16180835
GUUCAAACGGCAGCUCCUGGGGCAGAAAAAGCGGAGCUGAUUGGCAGCCGAGGAGUUGCGAC
.........(((((((((.((((.......))...(((....)))..)).)))))))))... ( -24.60, z-score =  -2.25, R)
>consensus
AGCAACUCAAGAACUCGCUAAUUAGAAAUAUCGAAGUAGCAUGAGAGUUGCGAA________
...........(((((((((....(......)....))))....)))))............. ( -5.26 =  -4.70 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:44:36 2011