Locus 11782

Sequence ID dm3.chr3R
Location 23,796,277 – 23,796,378
Length 101
Max. P 0.979105
window16192 window16193

overview

Window 2

Location 23,796,277 – 23,796,378
Length 101
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 79.98
Shannon entropy 0.35665
G+C content 0.54156
Mean single sequence MFE -35.00
Consensus MFE -20.14
Energy contribution -21.62
Covariance contribution 1.48
Combinations/Pair 1.04
Mean z-score -2.73
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.01
SVM RNA-class probability 0.979105
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23796277 101 + 27905053
GUCGGUUGUAGAAUGUUGAAUGUGGCACGGGCAGGGGCAGGGGCAGGGGCAUGGAAAGGGAUUUCAUGCGUACCGGCCACUGUUAAGCAUGCGACAAACUU
((..(((((...(((((.((((((((.(((((....((....))....((((((((.....)))))))))).)))))))).))).))))))))))..)).. ( -34.00, z-score =  -1.88, R)
>droEre2.scaffold_4820 6221246 76 - 10470090
-------GUCGGAUGUUGAAUGUGGCA------------------GGGGCAUGGUAAGGGAUUUCAUGCGGACCGGCCACUGCGAAGCAUGCGACAAACUU
-------((((.(((((....(((((.------------------((.((((((.........))))))...)).))))).....))))).))))...... ( -31.40, z-score =  -3.48, R)
>droYak2.chr3R 6128323 86 - 28832112
GUCGGUUGUUGAAUGUUG----UUGCA-----------UGUGGCAGGGGCAUGGGAAGGGAUUUCAUGCCGAACGGCCACUGUUAAGCAUGCGACAAACUU
.....((((((.(((((.----..(((-----------.(((((.(.((((((..(.....)..))))))...).))))))))..))))).)))))).... ( -33.80, z-score =  -3.09, R)
>droSec1.super_22 418745 101 + 1066717
GUCGGUUGUAGCAUGUUGAAUGUGGCAGGGGCAGGUGCUGGGGCAGGGGCAUGGAAAGGGAUUUCAUGCGUACCGGCCACUGUUAAGCAUGCGACAAACUU
.....((((.(((((((.((((((((.((..(...(((....)))...((((((((.....)))))))))..)).))))).))).))))))).)))).... ( -38.80, z-score =  -2.60, R)
>droSim1.chr3R 23498385 101 + 27517382
GUCGGUUGUAGAAUGUUGAAUGUGGCAGUGGCAGUGGCAGGGGCAGGGGCAUGGAAAGGGAUUUCAUGCGUACCGGCCACUGUUAAGCAUGCGACAAACUU
((((..(((....((((......)))).((((((((((..((....(.((((((((.....)))))))).).)).)))))))))).)))..))))...... ( -37.00, z-score =  -2.62, R)
>consensus
GUCGGUUGUAGAAUGUUGAAUGUGGCA__GGCAG__GCAGGGGCAGGGGCAUGGAAAGGGAUUUCAUGCGUACCGGCCACUGUUAAGCAUGCGACAAACUU
....(((((...(((((....(((((....((....)).......((.((((((((.....))))))))...)).))))).....))))))))))...... (-20.14 = -21.62 +   1.48)

alignment

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secondary structure

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dotplot

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Window 3

Location 23,796,277 – 23,796,378
Length 101
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 79.98
Shannon entropy 0.35665
G+C content 0.54156
Mean single sequence MFE -23.91
Consensus MFE -11.84
Energy contribution -13.04
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.803780
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23796277 101 - 27905053
AAGUUUGUCGCAUGCUUAACAGUGGCCGGUACGCAUGAAAUCCCUUUCCAUGCCCCUGCCCCUGCCCCUGCCCGUGCCACAUUCAACAUUCUACAACCGAC
..(..(((.(((((.....(((.(((.((((.(((((.((.....)).)))))...))))...))).)))..))))).)))..)................. ( -24.80, z-score =  -2.37, R)
>droEre2.scaffold_4820 6221246 76 + 10470090
AAGUUUGUCGCAUGCUUCGCAGUGGCCGGUCCGCAUGAAAUCCCUUACCAUGCCCC------------------UGCCACAUUCAACAUCCGAC-------
......((((.(((.......(((((.((...(((((...........))))).))------------------.)))))......))).))))------- ( -20.62, z-score =  -2.02, R)
>droYak2.chr3R 6128323 86 + 28832112
AAGUUUGUCGCAUGCUUAACAGUGGCCGUUCGGCAUGAAAUCCCUUCCCAUGCCCCUGCCACA-----------UGCAA----CAACAUUCAACAACCGAC
..(((.((.(((((.....).(((((.(...((((((...........)))))).).))))))-----------))).)----)))).............. ( -20.80, z-score =  -1.74, R)
>droSec1.super_22 418745 101 - 1066717
AAGUUUGUCGCAUGCUUAACAGUGGCCGGUACGCAUGAAAUCCCUUUCCAUGCCCCUGCCCCAGCACCUGCCCCUGCCACAUUCAACAUGCUACAACCGAC
..(.((((.(((((.......(((((.((..((((((.((.....)).)))))...(((....)))...)..)).)))))......))))).)))).)... ( -27.42, z-score =  -2.82, R)
>droSim1.chr3R 23498385 101 - 27517382
AAGUUUGUCGCAUGCUUAACAGUGGCCGGUACGCAUGAAAUCCCUUUCCAUGCCCCUGCCCCUGCCACUGCCACUGCCACAUUCAACAUUCUACAACCGAC
..(..(((.(((((.....(((((((.((((.(((((.((.....)).)))))...))))...))))))).)).))).)))..)................. ( -25.90, z-score =  -2.82, R)
>consensus
AAGUUUGUCGCAUGCUUAACAGUGGCCGGUACGCAUGAAAUCCCUUUCCAUGCCCCUGCCCCAGC__CUGCC__UGCCACAUUCAACAUUCUACAACCGAC
..(..(((.(((.(((....)))(((.((...(((((...........))))).)).)))..............))).)))..)................. (-11.84 = -13.04 +   1.20)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:49:33 2011