Locus 7819

Sequence ID dm3.chr3L
Location 17,576,076 – 17,576,168
Length 92
Max. P 0.986669
window10759 window10760

overview

Window 9

Location 17,576,076 – 17,576,168
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 79.10
Shannon entropy 0.34366
G+C content 0.53484
Mean single sequence MFE -32.12
Consensus MFE -18.49
Energy contribution -19.13
Covariance contribution 0.64
Combinations/Pair 1.16
Mean z-score -2.94
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.25
SVM RNA-class probability 0.986669
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17576076 92 + 24543557
CAGUGGCCAGCGAUCGCGAAUCUCGAGCUGCAUUUGUAUGCAGCGCCACUCGAGCAUUCGACCAUUCAGCCAUUUGGCCAUUCAUAAUGAAA
.((((((((((((...(((((((((((((((((....))))))).....))))).))))).....)).))....)))))))).......... ( -33.80, z-score =  -3.10, R)
>droSim1.chr3L 16914202 84 + 22553184
CAGUGGCCAGCGAUCGCGAAUCUCGAGCUGCAUUUGUAUGCAGCGCCACUCGAGCAUUCGA--------CCGUUUGGCCAUUCAUAAUGAAA
.(((((((((((....(((((((((((((((((....))))))).....))))).))))).--------.)).))))))))).......... ( -35.50, z-score =  -3.98, R)
>droSec1.super_0 9622821 84 + 21120651
CAGUGGCCAGCGAUCGCGAAUCUCGAGCUGCAUUUGUAUGCAGCGCCACUCGAGCAUUCGA--------CCGUUUGGCCAUUCAUAAUGAAA
.(((((((((((....(((((((((((((((((....))))))).....))))).))))).--------.)).))))))))).......... ( -35.50, z-score =  -3.98, R)
>droEre2.scaffold_4784 9483890 84 - 25762168
CAGUGGCCAGCGAUCGCGAAUCUCGAGCCGCAUUUGUAUGCAGCGCCAUUCGAGCAUUCGG--------CCAUUUGGCCAUUCAUAAUGAAA
.((((((((((....))(((((((((((.((((....)))).)).....))))).))))..--------.....)))))))).......... ( -28.30, z-score =  -1.36, R)
>dp4.chrXR_group6 2242661 71 + 13314419
CGAUGGCCGGCAAUCGC-----UGCAGUCGCAUUUGUAUGCAGCGCCAUGCGA----------------CCGGCCGUCCAUUCAUAAUGAAA
.(((((((((...((((-----.((.((.((((....)))).))))...))))----------------)))))))))..(((.....))). ( -29.80, z-score =  -2.59, R)
>droPer1.super_9 533187 71 + 3637205
CGAUGGCCGGCAAUCGC-----UGCAGUCGCAUUUGUAUGCAGCGCCAUGCGA----------------CCGGCCGUCCAUUCAUAAUGAAA
.(((((((((...((((-----.((.((.((((....)))).))))...))))----------------)))))))))..(((.....))). ( -29.80, z-score =  -2.59, R)
>consensus
CAGUGGCCAGCGAUCGCGAAUCUCGAGCCGCAUUUGUAUGCAGCGCCACUCGAGCAUUCGA________CCGUUUGGCCAUUCAUAAUGAAA
.((((((((((....))(((((((((((.((((....)))).)).....))))).))))...............)))))))).......... (-18.49 = -19.13 +   0.64)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,576,076 – 17,576,168
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 79.10
Shannon entropy 0.34366
G+C content 0.53484
Mean single sequence MFE -30.95
Consensus MFE -18.49
Energy contribution -19.88
Covariance contribution 1.39
Combinations/Pair 1.08
Mean z-score -2.37
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.39
SVM RNA-class probability 0.935177
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17576076 92 - 24543557
UUUCAUUAUGAAUGGCCAAAUGGCUGAAUGGUCGAAUGCUCGAGUGGCGCUGCAUACAAAUGCAGCUCGAGAUUCGCGAUCGCUGGCCACUG
............((((((...((((....))))((((.(((((.....(((((((....))))))))))))))))((....))))))))... ( -33.00, z-score =  -1.94, R)
>droSim1.chr3L 16914202 84 - 22553184
UUUCAUUAUGAAUGGCCAAACGG--------UCGAAUGCUCGAGUGGCGCUGCAUACAAAUGCAGCUCGAGAUUCGCGAUCGCUGGCCACUG
............((((((..(((--------(((....(((((.....(((((((....)))))))))))).....)))))).))))))... ( -34.70, z-score =  -3.55, R)
>droSec1.super_0 9622821 84 - 21120651
UUUCAUUAUGAAUGGCCAAACGG--------UCGAAUGCUCGAGUGGCGCUGCAUACAAAUGCAGCUCGAGAUUCGCGAUCGCUGGCCACUG
............((((((..(((--------(((....(((((.....(((((((....)))))))))))).....)))))).))))))... ( -34.70, z-score =  -3.55, R)
>droEre2.scaffold_4784 9483890 84 + 25762168
UUUCAUUAUGAAUGGCCAAAUGG--------CCGAAUGCUCGAAUGGCGCUGCAUACAAAUGCGGCUCGAGAUUCGCGAUCGCUGGCCACUG
............((((((.((.(--------(.((((.(((((.....(((((((....)))))))))))))))))).))...))))))... ( -30.70, z-score =  -2.20, R)
>dp4.chrXR_group6 2242661 71 - 13314419
UUUCAUUAUGAAUGGACGGCCGG----------------UCGCAUGGCGCUGCAUACAAAUGCGACUGCA-----GCGAUUGCCGGCCAUCG
..............((.((((((----------------(.......(((((((..(......)..))))-----)))...))))))).)). ( -26.30, z-score =  -1.50, R)
>droPer1.super_9 533187 71 - 3637205
UUUCAUUAUGAAUGGACGGCCGG----------------UCGCAUGGCGCUGCAUACAAAUGCGACUGCA-----GCGAUUGCCGGCCAUCG
..............((.((((((----------------(.......(((((((..(......)..))))-----)))...))))))).)). ( -26.30, z-score =  -1.50, R)
>consensus
UUUCAUUAUGAAUGGCCAAACGG________UCGAAUGCUCGAAUGGCGCUGCAUACAAAUGCAGCUCGAGAUUCGCGAUCGCUGGCCACUG
............((((((...............((((.(((((.....(((((((....))))))))))))))))((....))))))))... (-18.49 = -19.88 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:34:04 2011