Locus 1296

Sequence ID dm3.chr2L
Location 9,882,824 – 9,882,928
Length 104
Max. P 0.971992
window1764 window1765

overview

Window 4

Location 9,882,824 – 9,882,917
Length 93
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 79.64
Shannon entropy 0.38713
G+C content 0.45140
Mean single sequence MFE -23.96
Consensus MFE -16.88
Energy contribution -15.97
Covariance contribution -0.91
Combinations/Pair 1.54
Mean z-score -1.35
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.52
SVM RNA-class probability 0.728284
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 9882824 93 + 23011544
--CAUCGGUAUGUGUGCCAGUGGGUAUGUAUUUGUUUCCCAUUUAUUCUGUGUCGGUGUGUCCUCACCGUUUAGAAUAAAGGUACUUCCACGCAC
--.....(..((.(((((..((((.............))))(((((((((...(((((......)))))..))))))))))))))...))..).. ( -28.82, z-score =  -3.08, R)
>droSim1.chr2L 9667183 92 + 22036055
--UAUCGGUAUGUGUGCCACUGGGUAUGUAUUUGUUUCCCAUUUAU-CUGUGUCGGUGUGUCCUCGCCGUUUAGAAUAAAGGUACCUCCACGCAC
--....((...(.(((((..((((.............))))(((((-(((...(((((......)))))..))).))))))))))).))...... ( -24.02, z-score =  -1.13, R)
>droSec1.super_3 5328728 92 + 7220098
--CAUCGGUAUGUGCGCCACUGGGUAUGUAUUUGUUUCCCAUUUAU-CUGUGCCGGUGUGUCCUCGCCGUUUAGAAUAAAGGUACCUCCACGCAC
--.........(((((.....((((((...(((((((..(((....-..))).(((((......)))))....))))))).))))))...))))) ( -21.30, z-score =   0.38, R)
>droYak2.chr2L 12572550 92 + 22324452
--CAUCGGUAUGUGUGCCAGUGGGUAUGUAUUUGUUUCCCAUUUAU-CUGUGUCGGUGUGCCCUCACCGUUUAGAAUAAAGGUACUUCCACGCAC
--.....(..((.(((((((((((.............))))))..(-(((...(((((......)))))..)))).....)))))...))..).. ( -25.32, z-score =  -1.46, R)
>droEre2.scaffold_4929 10496522 92 + 26641161
--CAUCGGUAUGUGUGCCAGUGGGUAUGUAUUUGUCUCGUAUUUAU-UUGUGUCGGUGUGUCCUCACCGUUUAGAAUAAAGGUACUUCCACGCAC
--....((((....)))).(((((...(((((.........(((((-((....(((((......)))))....)))))))))))).))))).... ( -23.70, z-score =  -1.30, R)
>droWil1.scaffold_180772 8559463 93 + 8906247
CAUAUGUGUAUGUGUGUGUAUGAGAAAGCCAAUGUUUCUC-UGUAU-AUGUGCGUGUAUCUGCUUUCAAUUUGUGUUCCUGGCAUUUAGAGAAAG
.....(((((((..(((((((((((((.......))))))-.))))-)))..)))))))...(((((..(..((((.....))))..)..))))) ( -20.60, z-score =  -1.49, R)
>consensus
__CAUCGGUAUGUGUGCCAGUGGGUAUGUAUUUGUUUCCCAUUUAU_CUGUGUCGGUGUGUCCUCACCGUUUAGAAUAAAGGUACUUCCACGCAC
......((.....(((((..((((.............))))(((((.(((...(((((......)))))..))).))))))))))..))...... (-16.88 = -15.97 +  -0.91)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 9,882,832 – 9,882,928
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 79.37
Shannon entropy 0.40011
G+C content 0.45076
Mean single sequence MFE -29.07
Consensus MFE -17.87
Energy contribution -17.10
Covariance contribution -0.77
Combinations/Pair 1.50
Mean z-score -2.31
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.86
SVM RNA-class probability 0.971992
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 9882832 96 + 23011544
UGUGUGCCAGUGGGUAUGUAUUUGUUUCCCAUUUAUUCUGUGUCGGUGUGUCCUCACCGUUUAGAAUAAAGGUACUUCCACGCACACAAACGCACA
(((((((..(((((...(((........((.(((((((((...(((((......)))))..)))))))))))))).))))))))))))........ ( -33.70, z-score =  -3.75, R)
>droSim1.chr2L 9667191 95 + 22036055
UGUGUGCCACUGGGUAUGUAUUUGUUUCCCAUUUAU-CUGUGUCGGUGUGUCCUCGCCGUUUAGAAUAAAGGUACCUCCACGCACACAAACGCACA
(((((((....((((((...(((((((..(((....-..))).(((((......)))))....))))))).))))))....)))))))........ ( -26.60, z-score =  -1.24, R)
>droSec1.super_3 5328736 95 + 7220098
UGUGCGCCACUGGGUAUGUAUUUGUUUCCCAUUUAU-CUGUGCCGGUGUGUCCUCGCCGUUUAGAAUAAAGGUACCUCCACGCACACAAACGCACA
.(((((....((((.............)))).....-.((((((((((......)))))...........((.....))..)))))....))))). ( -25.82, z-score =  -0.72, R)
>droYak2.chr2L 12572558 95 + 22324452
UGUGUGCCAGUGGGUAUGUAUUUGUUUCCCAUUUAU-CUGUGUCGGUGUGCCCUCACCGUUUAGAAUAAAGGUACUUCCACGCACACAAACGCACA
(((((((..(((((...((((((..(((.(((....-..))).(((((......)))))....)))...)))))).))))))))))))........ ( -29.10, z-score =  -1.96, R)
>droEre2.scaffold_4929 10496530 95 + 26641161
UGUGUGCCAGUGGGUAUGUAUUUGUCUCGUAUUUAU-UUGUGUCGGUGUGUCCUCACCGUUUAGAAUAAAGGUACUUCCACGCACACAAAGGCACA
(((((((..(((((...(((((.........(((((-((....(((((......)))))....)))))))))))).))))))))))))........ ( -29.60, z-score =  -2.26, R)
>droWil1.scaffold_180772 8559473 94 + 8906247
UGUGUGUGUAUGAGAAAGCCAAUGUUUCUC-UGUAU-AUGUGCGUGUAUCUGCUUUCAAUUUGUGUUCCUGGCAUUUAGAGAAAGGUAGAUAUGCA
.(..(((((((((((((.......))))))-.))))-)))..)((((((((((((((..(..((((.....))))..)..)))).)))))))))). ( -29.60, z-score =  -3.94, R)
>consensus
UGUGUGCCAGUGGGUAUGUAUUUGUUUCCCAUUUAU_CUGUGUCGGUGUGUCCUCACCGUUUAGAAUAAAGGUACUUCCACGCACACAAACGCACA
(((((((...((((.............))))(((((.(((...(((((......)))))..))).)))))...........)))))))........ (-17.87 = -17.10 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:29:11 2011