Locus 185

Sequence ID dm3.chr2L
Location 1,304,776 – 1,304,882
Length 106
Max. P 0.969934
window259 window260

overview

Window 9

Location 1,304,776 – 1,304,882
Length 106
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 87.81
Shannon entropy 0.23362
G+C content 0.39941
Mean single sequence MFE -30.40
Consensus MFE -20.10
Energy contribution -20.72
Covariance contribution 0.61
Combinations/Pair 1.21
Mean z-score -2.20
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.49
SVM RNA-class probability 0.718091
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 1304776 106 + 23011544
UCGGUGUUAGUUCGCUGUUUGACUGCGGCUUUUGCCUUUUGUUUUUAUGCCACAGUAAAA-CAGUGAAAUGCGAUACUAUUGUUGCAACAAUUGUUGCUGCCUCGUU
..((((((..((((((((((.((((.(((....((.....))......))).)))).)))-)))))))....))))))...((.(((((....))))).))...... ( -34.30, z-score =  -3.30, R)
>droSim1.chr2L 1276313 106 + 22036055
UCGGUGUUAGUUCGCUGUUUGACUGCGGCUUUUGCCUUUUGUUUUUAUGCCACAGUAAAA-CAGUGAAAUGCGAUACUAUUGUUGCAACAAUUGUUGCUGCCACGUU
..((((((..((((((((((.((((.(((....((.....))......))).)))).)))-)))))))....))))))...((.(((((....))))).))...... ( -34.30, z-score =  -2.91, R)
>droSec1.super_14 1254547 106 + 2068291
UCGGUGUUAGUUCGCUGUUUGACUGCGGCUUUUGCCUUUUGUUUUUAUGCCACAGUAAAA-CAGUGAAAUGCGAUACUAUUGUUGCAACAAUUGUUGCUGCCACGUU
..((((((..((((((((((.((((.(((....((.....))......))).)))).)))-)))))))....))))))...((.(((((....))))).))...... ( -34.30, z-score =  -2.91, R)
>droEre2.scaffold_4929 1343582 107 + 26641161
UCGGUGUUAGCUCGCUGUUUGACUGCGGCUUUCGCCUUUUGUUUUUAUGCCACAGUAAAAACACUGAAAUGCGAUACUAUUGUUGCAACAAUUGUUGCUGCCUCGUU
..((((..(((.(((.(.....).))))))..))))...(((((((((......))))))))).......((((.......((.(((((....))))).)).)))). ( -28.60, z-score =  -1.46, R)
>droWil1.scaffold_180708 9629323 101 - 12563649
---UUGUUAGUACGUUGUUUGAAUGUGGCUUUUGCCUUUUGUUUUUAUGCCACAGUAAAAACAUUGAAAUGCGAUACUAUUGUUGCA-CAAUUGUUGCUACAACU--
---....((((((((..((..(....(((....)))...(((((((((......))))))))))..))..))).)))))((((.(((-(....).))).))))..-- ( -22.90, z-score =  -1.01, R)
>droGri2.scaffold_15252 6810330 104 - 17193109
UUAGUGUUAGUUCGCAGUUUGAAUGCGGCUUUUGC-UUUUGUUUUUAUGCCGCACUAAAAACAUUGAAACGCGAUACGAUUGUUGCAACAACUCCUGUUGUUGUU--
...(((((.(((((..((((...((((((....((-....))......))))))....))))..)).)))..))))).......((((((((....)))))))).-- ( -28.00, z-score =  -1.59, R)
>consensus
UCGGUGUUAGUUCGCUGUUUGACUGCGGCUUUUGCCUUUUGUUUUUAUGCCACAGUAAAA_CAGUGAAAUGCGAUACUAUUGUUGCAACAAUUGUUGCUGCCACGUU
..(((..((((((((.((((.((((.(((....)))......((((((......)))))).)))).)))))))).)))).....(((((....))))).)))..... (-20.10 = -20.72 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,304,776 – 1,304,882
Length 106
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 87.81
Shannon entropy 0.23362
G+C content 0.39941
Mean single sequence MFE -28.40
Consensus MFE -20.61
Energy contribution -20.75
Covariance contribution 0.14
Combinations/Pair 1.25
Mean z-score -2.69
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.82
SVM RNA-class probability 0.969934
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 1304776 106 - 23011544
AACGAGGCAGCAACAAUUGUUGCAACAAUAGUAUCGCAUUUCACUG-UUUUACUGUGGCAUAAAAACAAAAGGCAAAAGCCGCAGUCAAACAGCGAACUAACACCGA
.....((..(((((....))))).....((((.((((.......((-(((.((((((((...................)))))))).)))))))))))))...)).. ( -30.32, z-score =  -3.32, R)
>droSim1.chr2L 1276313 106 - 22036055
AACGUGGCAGCAACAAUUGUUGCAACAAUAGUAUCGCAUUUCACUG-UUUUACUGUGGCAUAAAAACAAAAGGCAAAAGCCGCAGUCAAACAGCGAACUAACACCGA
...(((((.(((((....))))).((....))...))..(((.(((-(((.((((((((...................)))))))).)))))).)))....)))... ( -32.11, z-score =  -3.45, R)
>droSec1.super_14 1254547 106 - 2068291
AACGUGGCAGCAACAAUUGUUGCAACAAUAGUAUCGCAUUUCACUG-UUUUACUGUGGCAUAAAAACAAAAGGCAAAAGCCGCAGUCAAACAGCGAACUAACACCGA
...(((((.(((((....))))).((....))...))..(((.(((-(((.((((((((...................)))))))).)))))).)))....)))... ( -32.11, z-score =  -3.45, R)
>droEre2.scaffold_4929 1343582 107 - 26641161
AACGAGGCAGCAACAAUUGUUGCAACAAUAGUAUCGCAUUUCAGUGUUUUUACUGUGGCAUAAAAACAAAAGGCGAAAGCCGCAGUCAAACAGCGAGCUAACACCGA
.....((..(((((....))))).....((((.((((.......((((((((........))))))))...(((....)))...........))))))))...)).. ( -29.40, z-score =  -2.07, R)
>droWil1.scaffold_180708 9629323 101 + 12563649
--AGUUGUAGCAACAAUUG-UGCAACAAUAGUAUCGCAUUUCAAUGUUUUUACUGUGGCAUAAAAACAAAAGGCAAAAGCCACAUUCAAACAACGUACUAACAA---
--.(((((........(((-(((....((((((..((((....))))...)))))).))))))........(((....)))........)))))..........--- ( -22.70, z-score =  -2.25, R)
>droGri2.scaffold_15252 6810330 104 + 17193109
--AACAACAACAGGAGUUGUUGCAACAAUCGUAUCGCGUUUCAAUGUUUUUAGUGCGGCAUAAAAACAAAA-GCAAAAGCCGCAUUCAAACUGCGAACUAACACUAA
--..(((((((....)))))))........((.(((((.......((((..((((((((............-......)))))))).)))))))))))......... ( -23.78, z-score =  -1.57, R)
>consensus
AACGUGGCAGCAACAAUUGUUGCAACAAUAGUAUCGCAUUUCACUG_UUUUACUGUGGCAUAAAAACAAAAGGCAAAAGCCGCAGUCAAACAGCGAACUAACACCGA
......(((((((...))))))).....((((.((((.......((.(((.((((((((...................)))))))).)))))))))))))....... (-20.61 = -20.75 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:08:15 2011