Locus 1514

Sequence ID dm3.chr2L
Location 11,712,284 – 11,712,420
Length 136
Max. P 0.977887
window2069 window2070

overview

Window 9

Location 11,712,284 – 11,712,395
Length 111
Sequences 7
Columns 111
Reading direction forward
Mean pairwise identity 84.49
Shannon entropy 0.31030
G+C content 0.46589
Mean single sequence MFE -37.49
Consensus MFE -23.20
Energy contribution -26.13
Covariance contribution 2.92
Combinations/Pair 1.21
Mean z-score -2.03
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.747903
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11712284 111 + 23011544
AGCUGUAGUGCUGCGGUUGAUGGGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCA
(((((((....)))))))(((..(.(((.((((((((((((((........))))))...(((....)))))))))))((((((......))))))..)))...)..))). ( -39.00, z-score =  -1.91, R)
>droSim1.chr2L 11521759 111 + 22036055
AGCUGUAGUGCUGCGGUUGAUGGGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCA
(((((((....)))))))(((..(.(((.((((((((((((((........))))))...(((....)))))))))))((((((......))))))..)))...)..))). ( -39.00, z-score =  -1.91, R)
>droSec1.super_3 7109792 111 + 7220098
AGCUGUAGUGCUGCGGUUGAUGGGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCA
(((((((....)))))))(((..(.(((.((((((((((((((........))))))...(((....)))))))))))((((((......))))))..)))...)..))). ( -39.00, z-score =  -1.91, R)
>droYak2.chr2L 8136838 111 + 22324452
CGCUGUAGUGCUGCGGUUGAUGGGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGACUGGUUAAAGUCAUUUAUUUCGAACAAAUCA
.((((((....))))))((((..(.(((.((((((((((((((........))))))...(((....)))))))))))((((......))))......)))...)..)))) ( -40.50, z-score =  -2.15, R)
>droEre2.scaffold_4929 12943386 111 - 26641161
AGCUGUAGUGCUGCGGUUGAUGGGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGACUGGUUAAAGUCAUUUAUUUCGAACAAAUCA
(((((((....)))))))(((..(.(((.((((((((((((((........))))))...(((....)))))))))))((((......))))......)))...)..))). ( -41.30, z-score =  -2.46, R)
>droAna3.scaffold_12916 9428193 106 - 16180835
AGCUGAAGUACUGCGGUUUCAUGGAGAAUGCCACUGCGGCGGCUGCUUUUUGUUA-----GCCAUCCAAAAAAUUCACAAAUGGUUAAAGCCAUUUAUUUCAAACAAAUCA
...((((((.(((((((..(((.....)))..))))))).((((((.....).))-----)))...............(((((((....)))))))))))))......... ( -27.00, z-score =  -0.98, R)
>droWil1.scaffold_180772 5180635 102 - 8906247
AGCUGAAGUGCUGCGGUAUGCUGCCUUUUG-GAGUGCGGCA----UUUUUUGCCGC----UUUUCCCGCAGCAUUUGCAAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCA
.((..(((((((((((...(((.((....)-))))((((((----.....))))))----.....)))))))))))))((((((......))))))............... ( -36.60, z-score =  -2.91, R)
>consensus
AGCUGUAGUGCUGCGGUUGAUGGGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCA
(((((((....))))))).....((((..((((((((((((((........))))))...(((....)))))))))))((((((......)))))).)))).......... (-23.20 = -26.13 +   2.92)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,712,306 – 11,712,420
Length 114
Sequences 7
Columns 114
Reading direction forward
Mean pairwise identity 80.18
Shannon entropy 0.40125
G+C content 0.45565
Mean single sequence MFE -32.60
Consensus MFE -18.88
Energy contribution -21.37
Covariance contribution 2.50
Combinations/Pair 1.26
Mean z-score -2.48
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.98
SVM RNA-class probability 0.977887
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11712306 114 + 23011544
GGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCAUUUGCCACAACCGACUAACGAAGCC
((.....((((((((((((((........))))))...(((....)))))))))))((((((((....((.........))...)))))))).......))............. ( -34.30, z-score =  -2.17, R)
>droSim1.chr2L 11521781 114 + 22036055
GGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCAUUUGCCACAACCCACUAACGAAGCC
((.....((((((((((((((........))))))...(((....)))))))))))((((((((....((.........))...))))))))........))............ ( -34.10, z-score =  -2.22, R)
>droSec1.super_3 7109814 114 + 7220098
GGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCAUUUGCCACAACCCACUAACGAAGCC
((.....((((((((((((((........))))))...(((....)))))))))))((((((((....((.........))...))))))))........))............ ( -34.10, z-score =  -2.22, R)
>droYak2.chr2L 8136860 114 + 22324452
GGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGACUGGUUAAAGUCAUUUAUUUCGAACAAAUCAUUUGCCACAACCCACUAACGAAGCC
((..(((((((((((((((((........))))))...(((....)))))))))))((((......))))..................)))..))................... ( -36.00, z-score =  -2.80, R)
>droEre2.scaffold_4929 12943408 114 - 26641161
GGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGACUGGUUAAAGUCAUUUAUUUCGAACAAAUCAUUUGCCACAACCCACUAACGAAGCC
((..(((((((((((((((((........))))))...(((....)))))))))))((((......))))..................)))..))................... ( -36.00, z-score =  -2.80, R)
>droAna3.scaffold_12916 9428215 95 - 16180835
GGAGAAUGCCACUGCGGCGGCUGCUUUUUGUUA-----GCCAUCCAAAAAAUUCACAAAUGGUUAAAGCCAUUUAUUUCAAACAAAUCAUU--CUUCAACGA------------
((((((((((.....)))((((((.....).))-----)))...............(((((((....)))))))..............)))--)))).....------------ ( -24.00, z-score =  -2.47, R)
>droWil1.scaffold_180772 5180660 99 - 8906247
----UUUUGGAGUGCGGCA----UUUUUUGCCGC----UUUUCCCGCAGCAUUUGCAAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCAUUUGCCAAAGCCACAGGAAGAG---
----.........((((((----.....))))))----((((((.(..((.((.((((((((((....((.........))...)))))))))).)).))..).)))))).--- ( -29.70, z-score =  -2.68, R)
>consensus
GGAGAAUGUGAAUGCGGCAGCUGCUUUUUGUUGCCACCGCCACAGGGCGCAUUCACGAAUGGUUAAAGUCAUUUAUUUCGAACAAAUCAUUUGCCACAACCCACUAACGAAGCC
.((((..((((((((((((((........))))))...(((....)))))))))))((((((......)))))).))))................................... (-18.88 = -21.37 +   2.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:33:26 2011