Locus 5077

Sequence ID dm3.chr2R
Location 17,563,226 – 17,563,317
Length 91
Max. P 0.771626
window6967 window6968

overview

Window 7

Location 17,563,226 – 17,563,317
Length 91
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 90.62
Shannon entropy 0.16867
G+C content 0.46941
Mean single sequence MFE -27.76
Consensus MFE -21.84
Energy contribution -21.92
Covariance contribution 0.08
Combinations/Pair 1.04
Mean z-score -2.01
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.771626
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17563226 91 + 21146708
GUGCAUGGCAUACCAUAACGAUUCCGAUUUCAAAUCGGUUUGGUUUCGGGGCGGCUUUAUCAGCGCCUCGCACGCAGCUAUUUAUAGUUGA-----
((((((((....))))(((.(..(((((.....)))))..).)))..((((((.((.....)))))))))))).((((((....)))))).----- ( -32.20, z-score =  -3.14, R)
>droSim1.chr2R 16212115 90 + 19596830
GUGCAUGGCAUACCAUAACGAUUCCGAUUUCAAAUCGGUU-GGUUUUGGGGCGGCUUUAUCAGCGCCUCACACGCAGCUAUUUAUAGUUGA-----
(((...(((...(((.(((.(..(((((.....))))).)-.))).)))....(((.....))))))...))).((((((....)))))).----- ( -26.80, z-score =  -1.85, R)
>droSec1.super_9 889076 90 + 3197100
GUGCAUGGCAUACCAUAACGAUUCCGAUUUCAAAUCGGUU-GGUUUUGGGGCGGCUUUAUCAGCGCCUCACACGCAGCUAUUUAUAGUUGA-----
(((...(((...(((.(((.(..(((((.....))))).)-.))).)))....(((.....))))))...))).((((((....)))))).----- ( -26.80, z-score =  -1.85, R)
>droYak2.chr2R 9530945 94 - 21139217
GUGCAUGGCAUACCAUAACGAUUCCGAUUUCAAAUCGCUU--GCUUUGGGGCGGGUUUAUCAGCGCCUCACACGCAGCUAUUUAUAGUUGGGAGUG
((..((((....)))).))..((((((((..((((.(((.--((..(((((((.(.....)..)))))))...))))).))))..))))))))... ( -29.20, z-score =  -1.75, R)
>droEre2.scaffold_4845 11711563 93 + 22589142
GUGCAUGGCAUACCAUA-CAAUUCCGAUUUCAAAUCGGUU--GGUUUGGGGCGGGUUUAUCAGCGCCUCACACGCAGCUAUUUAUAGUUACAUAUA
..((((((....)))).-(((..(((((.....)))))))--)((.(((((((.(.....)..))))))).))))(((((....)))))....... ( -23.80, z-score =  -1.45, R)
>consensus
GUGCAUGGCAUACCAUAACGAUUCCGAUUUCAAAUCGGUU_GGUUUUGGGGCGGCUUUAUCAGCGCCUCACACGCAGCUAUUUAUAGUUGA_____
(((.((((....)))).......(((((.....)))))........(((((((..........)))))))))).((((((....))))))...... (-21.84 = -21.92 +   0.08)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,563,226 – 17,563,317
Length 91
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 90.62
Shannon entropy 0.16867
G+C content 0.46941
Mean single sequence MFE -23.64
Consensus MFE -19.34
Energy contribution -19.86
Covariance contribution 0.52
Combinations/Pair 1.09
Mean z-score -1.55
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.06
SVM RNA-class probability 0.524499
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17563226 91 - 21146708
-----UCAACUAUAAAUAGCUGCGUGCGAGGCGCUGAUAAAGCCGCCCCGAAACCAAACCGAUUUGAAAUCGGAAUCGUUAUGGUAUGCCAUGCAC
-----...............((((((((.((((((.....)).)))).))..((((...((((((.......))))))...))))....)))))). ( -24.50, z-score =  -1.62, R)
>droSim1.chr2R 16212115 90 - 19596830
-----UCAACUAUAAAUAGCUGCGUGUGAGGCGCUGAUAAAGCCGCCCCAAAACC-AACCGAUUUGAAAUCGGAAUCGUUAUGGUAUGCCAUGCAC
-----...............((((((...((((((.....)).))))(((.(((.-..(((((.....)))))....))).))).....)))))). ( -23.30, z-score =  -1.59, R)
>droSec1.super_9 889076 90 - 3197100
-----UCAACUAUAAAUAGCUGCGUGUGAGGCGCUGAUAAAGCCGCCCCAAAACC-AACCGAUUUGAAAUCGGAAUCGUUAUGGUAUGCCAUGCAC
-----...............((((((...((((((.....)).))))(((.(((.-..(((((.....)))))....))).))).....)))))). ( -23.30, z-score =  -1.59, R)
>droYak2.chr2R 9530945 94 + 21139217
CACUCCCAACUAUAAAUAGCUGCGUGUGAGGCGCUGAUAAACCCGCCCCAAAGC--AAGCGAUUUGAAAUCGGAAUCGUUAUGGUAUGCCAUGCAC
...(((......(((((.(((((...((.((((..........)))).))..))--.))).))))).....)))...((.((((....)))))).. ( -21.40, z-score =  -0.28, R)
>droEre2.scaffold_4845 11711563 93 - 22589142
UAUAUGUAACUAUAAAUAGCUGCGUGUGAGGCGCUGAUAAACCCGCCCCAAACC--AACCGAUUUGAAAUCGGAAUUG-UAUGGUAUGCCAUGCAC
((((((((.(((....))).)))))))).((((..........)))).......--..(((((.....)))))...((-(((((....))))))). ( -25.70, z-score =  -2.68, R)
>consensus
_____UCAACUAUAAAUAGCUGCGUGUGAGGCGCUGAUAAAGCCGCCCCAAAACC_AACCGAUUUGAAAUCGGAAUCGUUAUGGUAUGCCAUGCAC
....................((((((...((((((.....)).))))(((.(((....(((((.....)))))....))).))).....)))))). (-19.34 = -19.86 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:41:24 2011