Locus 7347

Sequence ID dm3.chr3L
Location 14,197,537 – 14,197,638
Length 101
Max. P 0.980774
window10120 window10121

overview

Window 0

Location 14,197,537 – 14,197,638
Length 101
Sequences 7
Columns 119
Reading direction forward
Mean pairwise identity 71.67
Shannon entropy 0.53021
G+C content 0.52822
Mean single sequence MFE -36.76
Consensus MFE -24.82
Energy contribution -26.26
Covariance contribution 1.44
Combinations/Pair 1.40
Mean z-score -1.56
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.06
SVM RNA-class probability 0.980774
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14197537 101 + 24543557
CAUAGUUCCCAAGUCU--ACGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCAA-CAUU------------
................--.....((((((((((.....((....((((((((.((((((((.....)))))))).....))))))))---))))))).))))-)...------------ ( -36.20, z-score =  -1.37, R)
>droSim1.chr3L 13553218 102 + 22553184
CAUAGUUCCCAAGUCU--CCGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCAAACAUU------------
............((((--((((((((((.......))))))...((((((((.((((((((.....)))))))).....))))))))---)))))))).........------------ ( -37.30, z-score =  -1.67, R)
>droSec1.super_0 6344296 102 + 21120651
CAUAGUUCCCAAGUCU--CCGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCAAACAUU------------
............((((--((((((((((.......))))))...((((((((.((((((((.....)))))))).....))))))))---)))))))).........------------ ( -37.30, z-score =  -1.67, R)
>droYak2.chr3L 14293356 113 + 24197627
CACUAUUCCCAAGUCU--CCGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCAG-CAUUGUUGGCAGUUUG
.(((........((((--((((((((((.......))))))...((((((((.((((((((.....)))))))).....))))))))---))))))))((((-(...))))).)))... ( -40.90, z-score =  -1.04, R)
>droEre2.scaffold_4784 14189814 101 + 25762168
CACAGUUCCCAAGUCU--CCGCUGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU---GCGGGGGCCCAA-CAUU------------
............((((--((((....(((.........)))...((((((((.((((((((.....)))))))).....))))))))---))))))))....-....------------ ( -38.20, z-score =  -2.07, R)
>droAna3.scaffold_13337 18438343 108 - 23293914
CAUAAUUACAGAGUGUAGCUGUUGGGGGCCCUCGAUUAGCCUUUUAGGUGGCCGGCUACCUAAUGGCGGCAUUUUCUGAGCCACCUUUAAGCGGCGGCCCCC-AACUAA----------
.....((((.....))))..((((((((((.(((.((((((..((((((((....)))))))).)))(((.........))).....))).))).)))))))-)))...---------- ( -46.80, z-score =  -2.95, R)
>droVir3.scaffold_13049 3085653 101 - 25233164
-GUCAAUCCCAA-UUUGGCUGCAUUUAGAUUUCCACU--UCUCAAAGCGCACAAAUUAUAGAGUUUAGGCUCGAUC-AAUCUGGCUUAAGGUAGCAGCUUGAUAAA-------------
-.........((-((((((.((.((.(((........--))).)).)))).))))))...((((....)))).(((-((.(((.((......))))).)))))...------------- ( -20.60, z-score =  -0.16, R)
>consensus
CAUAGUUCCCAAGUCU__CCGUGGUUGGCCCUCAAUUAGCCUUAAAGGUGGCCGGCUGCCUAAUCGAGGCAGUUUCCAAGCCACUUU___GCGGGGGCCCAA_CAUU____________
....................(((.(((((((((.....((....((((((((.((((((((.....)))))))).....))))))))...)))))))).))).)))............. (-24.82 = -26.26 +   1.44)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,197,537 – 14,197,638
Length 101
Sequences 7
Columns 119
Reading direction reverse
Mean pairwise identity 71.67
Shannon entropy 0.53021
G+C content 0.52822
Mean single sequence MFE -36.20
Consensus MFE -19.25
Energy contribution -20.21
Covariance contribution 0.97
Combinations/Pair 1.38
Mean z-score -1.23
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.51
SVM RNA-class probability 0.725765
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14197537 101 - 24543557
------------AAUG-UUGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGU--AGACUUGGGAACUAUG
------------...(-((.(((((((..---(((((((((.((...((((((.....))))))))))))).))))..))........)))))..(((.(.--...).))).))).... ( -33.60, z-score =  -0.45, R)
>droSim1.chr3L 13553218 102 - 22553184
------------AAUGUUUGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGG--AGACUUGGGAACUAUG
------------...((((.(((((((..---(((((((((.((...((((((.....))))))))))))).))))..))........)))))..(((.(.--...).))))))).... ( -38.40, z-score =  -1.66, R)
>droSec1.super_0 6344296 102 - 21120651
------------AAUGUUUGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGG--AGACUUGGGAACUAUG
------------...((((.(((((((..---(((((((((.((...((((((.....))))))))))))).))))..))........)))))..(((.(.--...).))))))).... ( -38.40, z-score =  -1.66, R)
>droYak2.chr3L 14293356 113 - 24197627
CAAACUGCCAACAAUG-CUGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGG--AGACUUGGGAAUAGUG
...............(-((((((((((..---(((((((((.((...((((((.....))))))))))))).))))..))........)))))..(((.(.--...).)))...)))). ( -38.80, z-score =  -0.71, R)
>droEre2.scaffold_4784 14189814 101 - 25762168
------------AAUG-UUGGGCCCCCGC---AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACAGCGG--AGACUUGGGAACUGUG
------------..(.-(..((.(.((((---...((((((.((...((((((.....))))))))))))))......((((.......))))....))))--.).))..).)...... ( -36.30, z-score =  -0.56, R)
>droAna3.scaffold_13337 18438343 108 + 23293914
----------UUAGUU-GGGGGCCGCCGCUUAAAGGUGGCUCAGAAAAUGCCGCCAUUAGGUAGCCGGCCACCUAAAAGGCUAAUCGAGGGCCCCCAACAGCUACACUCUGUAAUUAUG
----------...(((-(((((((((..(((((.((((((.........)))))).)))))..)).((((........)))).......))))))))))...(((.....)))...... ( -49.10, z-score =  -4.05, R)
>droVir3.scaffold_13049 3085653 101 + 25233164
-------------UUUAUCAAGCUGCUACCUUAAGCCAGAUU-GAUCGAGCCUAAACUCUAUAAUUUGUGCGCUUUGAGA--AGUGGAAAUCUAAAUGCAGCCAAA-UUGGGAUUGAC-
-------------........(((((...(((((((((((((-(...(((......)))..))))))).))...))))).--..(((....)))...)))))....-...........- ( -18.80, z-score =   0.48, R)
>consensus
____________AAUG_UUGGGCCCCCGC___AAAGUGGCUUGGAAACUGCCUCGAUUAGGCAGCCGGCCACCUUUAAGGCUAAUUGAGGGCCAACCACGG__AGACUUGGGAACUAUG
....................(((((.(((...((((((((.(((...(((((.......))))))))))))).)))...)).....).))))).......................... (-19.25 = -20.21 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:25:15 2011