Locus 7630

Sequence ID dm3.chr3L
Location 16,052,159 – 16,052,230
Length 71
Max. P 0.912055
window10501 window10502

overview

Window 1

Location 16,052,159 – 16,052,230
Length 71
Sequences 6
Columns 71
Reading direction forward
Mean pairwise identity 87.22
Shannon entropy 0.24361
G+C content 0.35053
Mean single sequence MFE -18.10
Consensus MFE -12.25
Energy contribution -13.50
Covariance contribution 1.25
Combinations/Pair 1.09
Mean z-score -2.00
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.653226
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 16052159 71 + 24543557
GCCAUAUAAAUCGUUAUACAAUUUGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCAAAAUGCUAUUGACCUA
((..(((((....)))))....((((((......))))))))....((((((((.....)))))))).... ( -15.50, z-score =  -1.40, R)
>droAna3.scaffold_13337 6730866 66 - 23293914
---AUAUCAAUAGUUAUACAAUUUGGCAAAGCUAUGCCAGGCAUUUC-GGUUGGAAAAC-CCAUCGAGACA
---..................(((((((......)))))))..((((-(((.((....)-).))))))).. ( -14.80, z-score =  -1.59, R)
>droEre2.scaffold_4784 18298346 71 + 25762168
GCUGUAUAAAUCGUUAUACAAUUUGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCACAAUGCUAUUGAGCCA
(((((((((....)))))))..((((((......))))))))...(((((((((.....)))))))))... ( -20.90, z-score =  -2.53, R)
>droYak2.chr3L 18614167 70 + 24197627
GCUGUAUAAAUCGUUAUACAAUUUGGCAAAAAUAUGCCAAGCAUUUU-AGUGGCGAAAUGGUAUUGAGCCA
(((((((((....)))))))..((((((......)))))))).....-..((((..(((...)))..)))) ( -17.40, z-score =  -1.45, R)
>droSec1.super_0 8152238 71 + 21120651
GCCGUAUAAAUCGUUAUACAAUUUGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCAAAAUGCUAUUGAGCUA
((.((((((....))))))...((((((......))))))))...(((((((((.....)))))))))... ( -20.00, z-score =  -2.52, R)
>droSim1.chr3L 15390766 71 + 22553184
GCCGUAUAAAUCGUUAUACAAUUUGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCAAAAUGCUAUUGAGCUA
((.((((((....))))))...((((((......))))))))...(((((((((.....)))))))))... ( -20.00, z-score =  -2.52, R)
>consensus
GCCGUAUAAAUCGUUAUACAAUUUGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCAAAAUGCUAUUGAGCCA
...((((((....))))))..(((((((......)))))))....(((((((((.....)))))))))... (-12.25 = -13.50 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,052,159 – 16,052,230
Length 71
Sequences 6
Columns 71
Reading direction reverse
Mean pairwise identity 87.22
Shannon entropy 0.24361
G+C content 0.35053
Mean single sequence MFE -16.99
Consensus MFE -13.83
Energy contribution -14.08
Covariance contribution 0.25
Combinations/Pair 1.24
Mean z-score -1.97
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.22
SVM RNA-class probability 0.912055
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 16052159 71 - 24543557
UAGGUCAAUAGCAUUUUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCAAAUUGUAUAACGAUUUAUAUGGC
((((((....(((((((.......)))))))((((((......))))))..........))))))...... ( -17.80, z-score =  -1.98, R)
>droAna3.scaffold_13337 6730866 66 + 23293914
UGUCUCGAUGG-GUUUUCCAACC-GAAAUGCCUGGCAUAGCUUUGCCAAAUUGUAUAACUAUUGAUAU---
....(((((((-...(((.....-)))((((.(((((......)))))....))))..)))))))...--- ( -13.50, z-score =  -0.84, R)
>droEre2.scaffold_4784 18298346 71 - 25762168
UGGCUCAAUAGCAUUGUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCAAAUUGUAUAACGAUUUAUACAGC
((((.((((...)))).))))..........((((((......)))))).((((((((....)))))))). ( -19.30, z-score =  -2.22, R)
>droYak2.chr3L 18614167 70 - 24197627
UGGCUCAAUACCAUUUCGCCACU-AAAAUGCUUGGCAUAUUUUUGCCAAAUUGUAUAACGAUUUAUACAGC
((((.............))))..-.......((((((......)))))).((((((((....)))))))). ( -15.72, z-score =  -2.21, R)
>droSec1.super_0 8152238 71 - 21120651
UAGCUCAAUAGCAUUUUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCAAAUUGUAUAACGAUUUAUACGGC
..(((.....(((((((.......)))))))((((((......))))))...((((((....))))))))) ( -17.80, z-score =  -2.28, R)
>droSim1.chr3L 15390766 71 - 22553184
UAGCUCAAUAGCAUUUUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCAAAUUGUAUAACGAUUUAUACGGC
..(((.....(((((((.......)))))))((((((......))))))...((((((....))))))))) ( -17.80, z-score =  -2.28, R)
>consensus
UAGCUCAAUAGCAUUUUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCAAAUUGUAUAACGAUUUAUACGGC
.........((((((((.......))))))))(((((......)))))..((((((((....)))))))). (-13.83 = -14.08 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:30:30 2011