Locus 14814

Sequence ID dm3.chrX
Location 15,680,632 – 15,680,790
Length 158
Max. P 0.993669
window20393 window20394 window20395 window20396

overview

Window 3

Location 15,680,632 – 15,680,750
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.61
Shannon entropy 0.25027
G+C content 0.51359
Mean single sequence MFE -38.86
Consensus MFE -28.04
Energy contribution -30.12
Covariance contribution 2.08
Combinations/Pair 1.12
Mean z-score -2.16
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.99
SVM RNA-class probability 0.869243
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15680632 118 + 22422827
UGCCCUCGAGUUUGCCCACGACUACUACAAGUGGGUACA--ACGAGGUCCGCUUUCAACGAACCAAGUUCUCCGGCGAGUUUGUGGACAGUAGUUGGUCCAACUCACUUAAGAACUCGGA
.(((((((....(((((((...........)))))))..--.)))))...))..........((.((((((..((.((((...(((((........))))))))).))..)))))).)). ( -40.20, z-score =  -1.80, R)
>droSim1.chrX 12162514 118 + 17042790
UGCCCUCGAGUUUGCCCACGACUACUACAAGUGGGUACA--ACGAGGUCCGCUUCCAACGAACCAAGUUCUCCGGCGAGUUUGCGGACAGUCGCUUGUCCAACUCACCUAAGAACUCGGA
.(((((((....(((((((...........)))))))..--.)))))...))..........((.((((((..((.(((((...((((((....))))))))))).))..)))))).)). ( -43.00, z-score =  -2.81, R)
>droSec1.super_37 264723 118 + 454039
UGCCCUCGAGUUUGCCCACGACUACUACAAGUGGGUACA--ACGAGGUCGUCUUCCAACGAACCAAGUUCUCCGGCGAGUUUGCGGACAGUAGCUUGUCCAACUCACUUAAGAACUCGGG
...(((((....(((((((...........)))))))..--.)))))((((......)))).((.((((((..((.(((((...((((((....))))))))))).))..)))))).)). ( -43.10, z-score =  -2.81, R)
>droYak2.chrX 9883966 120 + 21770863
UGCCCUCGAAUUCGCCCACGACUACUACAAGUGGGUAAAAAAUGAGGCCCACUCUCAUCGAACCGAGUUCUCAUGCGUGUUGGUGGGCAGAAGCUUCCCAAACUCACUUAAGAACUCUAA
.....((((....((((((...........))))))......(((((.....)))))))))...(((((((...(.(..((((..(((....)))..))))...).)...)))))))... ( -35.60, z-score =  -2.43, R)
>droEre2.scaffold_4690 7390560 118 - 18748788
UGCCCUUGAGUUUGCACACGACUACUACAAGUGGGUAAA--AUGAGGCCCCCUUUCAACAAACCGAGUUCUCAUGCGAGUUUGUGGGCAGUGACUUCGCAAACUCACUUAAGAACUCUGA
...((((...(((((.(((...........))).)))))--..)))).................(((((((...(.(((((((((((.......))))))))))).)...)))))))... ( -32.40, z-score =  -0.95, R)
>consensus
UGCCCUCGAGUUUGCCCACGACUACUACAAGUGGGUACA__ACGAGGUCCGCUUUCAACGAACCAAGUUCUCCGGCGAGUUUGUGGACAGUAGCUUGUCCAACUCACUUAAGAACUCGGA
...(((((....(((((((...........))))))).....)))))...............((.((((((..((.(((((...((((((....))))))))))).))..)))))).)). (-28.04 = -30.12 +   2.08)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,680,632 – 15,680,750
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.61
Shannon entropy 0.25027
G+C content 0.51359
Mean single sequence MFE -44.02
Consensus MFE -33.22
Energy contribution -34.94
Covariance contribution 1.72
Combinations/Pair 1.12
Mean z-score -2.30
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.43
SVM RNA-class probability 0.939450
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15680632 118 - 22422827
UCCGAGUUCUUAAGUGAGUUGGACCAACUACUGUCCACAAACUCGCCGGAGAACUUGGUUCGUUGAAAGCGGACCUCGU--UGUACCCACUUGUAGUAGUCGUGGGCAAACUCGAGGGCA
.((((((((((..(((((((((((........)))))...))))))..))))))))))(((((.....)))))(((((.--.((.(((((...........)))))...)).)))))... ( -46.60, z-score =  -3.04, R)
>droSim1.chrX 12162514 118 - 17042790
UCCGAGUUCUUAGGUGAGUUGGACAAGCGACUGUCCGCAAACUCGCCGGAGAACUUGGUUCGUUGGAAGCGGACCUCGU--UGUACCCACUUGUAGUAGUCGUGGGCAAACUCGAGGGCA
.((((((((((.(((((((((((((......)))))...)))))))).))))))))))(((((.....)))))(((((.--.((.(((((...........)))))...)).)))))... ( -51.00, z-score =  -3.15, R)
>droSec1.super_37 264723 118 - 454039
CCCGAGUUCUUAAGUGAGUUGGACAAGCUACUGUCCGCAAACUCGCCGGAGAACUUGGUUCGUUGGAAGACGACCUCGU--UGUACCCACUUGUAGUAGUCGUGGGCAAACUCGAGGGCA
.((((((((((..((((((((((((......)))))...)))))))..)))))))))).(((((....)))))(((((.--.((.(((((...........)))))...)).)))))... ( -48.90, z-score =  -3.29, R)
>droYak2.chrX 9883966 120 - 21770863
UUAGAGUUCUUAAGUGAGUUUGGGAAGCUUCUGCCCACCAACACGCAUGAGAACUCGGUUCGAUGAGAGUGGGCCUCAUUUUUUACCCACUUGUAGUAGUCGUGGGCGAAUUCGAGGGCA
...(((((((((.(((.(((.((...((....))...))))).))).)))))))))...............(.((((....((..(((((...........)))))..))...)))).). ( -38.70, z-score =  -1.25, R)
>droEre2.scaffold_4690 7390560 118 + 18748788
UCAGAGUUCUUAAGUGAGUUUGCGAAGUCACUGCCCACAAACUCGCAUGAGAACUCGGUUUGUUGAAAGGGGGCCUCAU--UUUACCCACUUGUAGUAGUCGUGUGCAAACUCAAGGGCA
...(((((((((.(((((((((.(...........).))))))))).)))))))))(((((((...((((((.......--....))).))).............)))))))........ ( -34.89, z-score =  -0.77, R)
>consensus
UCCGAGUUCUUAAGUGAGUUGGACAAGCUACUGUCCACAAACUCGCCGGAGAACUUGGUUCGUUGAAAGCGGACCUCGU__UGUACCCACUUGUAGUAGUCGUGGGCAAACUCGAGGGCA
.((((((((((..((((((((((((......))))))...))))))..)))))))))).............(.(((((.......(((((...........)))))......))))).). (-33.22 = -34.94 +   1.72)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,680,670 – 15,680,790
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.83
Shannon entropy 0.28641
G+C content 0.50833
Mean single sequence MFE -42.96
Consensus MFE -27.60
Energy contribution -29.80
Covariance contribution 2.20
Combinations/Pair 1.18
Mean z-score -2.06
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.55
SVM RNA-class probability 0.740212
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15680670 120 + 22422827
AACGAGGUCCGCUUUCAACGAACCAAGUUCUCCGGCGAGUUUGUGGACAGUAGUUGGUCCAACUCACUUAAGAACUCGGAUUGGUUGGAGUGGUCCCAGUUACAAGUUCGACCGUCUGAU
(((..((.((((((.((((.((((.((((((..((.((((...(((((........))))))))).))..)))))).)).)).)))))))))).))..)))................... ( -41.30, z-score =  -1.74, R)
>droSim1.chrX 12162552 120 + 17042790
AACGAGGUCCGCUUCCAACGAACCAAGUUCUCCGGCGAGUUUGCGGACAGUCGCUUGUCCAACUCACCUAAGAACUCGGAUUGGUUGGAGUGGCCCUAGUUACAAGUUGGGUCGUCUGAU
(((.(((.(((((.(((((.((((.((((((..((.(((((...((((((....))))))))))).))..)))))).)).)).)))))))))).))).)))....((..(.....)..)) ( -47.40, z-score =  -2.79, R)
>droSec1.super_37 264761 120 + 454039
AACGAGGUCGUCUUCCAACGAACCAAGUUCUCCGGCGAGUUUGCGGACAGUAGCUUGUCCAACUCACUUAAGAACUCGGGUUGGUUGGAGUGGCCCUAGUUACAAGUUCGGUCGUCUGAU
(((..(((((.((.(((((.((((.((((((..((.(((((...((((((....))))))))))).))..))))))..)))).))))))))))))...)))......((((....)))). ( -44.90, z-score =  -2.48, R)
>droYak2.chrX 9884006 120 + 21770863
AAUGAGGCCCACUCUCAUCGAACCGAGUUCUCAUGCGUGUUGGUGGGCAGAAGCUUCCCAAACUCACUUAAGAACUCUAAUUGGUUGAAGUGGGCCGAGAUACAAGUUCGGUGGUCUGGU
.....((((((((.(((((((...(((((((...(.(..((((..(((....)))..))))...).)...)))))))...)))).))))))))))).((((((.......)).))))... ( -41.60, z-score =  -1.81, R)
>droEre2.scaffold_4690 7390598 120 - 18748788
AAUGAGGCCCCCUUUCAACAAACCGAGUUCUCAUGCGAGUUUGUGGGCAGUGACUUCGCAAACUCACUUAAGAACUCUGAUUGGUUGGAGUGGCUCGAGUUACAAGUACGGUCGUCUGGU
.((.((((..((.((((((...(.(((((((...(.(((((((((((.......))))))))))).)...))))))).)....))))))(((((....)))))......))..)))).)) ( -39.60, z-score =  -1.49, R)
>consensus
AACGAGGUCCGCUUUCAACGAACCAAGUUCUCCGGCGAGUUUGUGGACAGUAGCUUGUCCAACUCACUUAAGAACUCGGAUUGGUUGGAGUGGCCCGAGUUACAAGUUCGGUCGUCUGAU
(((..((.(((((.(((((.((((.((((((..((.(((((...((((((....))))))))))).))..)))))).)).)).)))))))))).))..)))................... (-27.60 = -29.80 +   2.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,680,670 – 15,680,790
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.83
Shannon entropy 0.28641
G+C content 0.50833
Mean single sequence MFE -43.14
Consensus MFE -30.28
Energy contribution -31.32
Covariance contribution 1.04
Combinations/Pair 1.20
Mean z-score -3.10
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.63
SVM RNA-class probability 0.993669
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15680670 120 - 22422827
AUCAGACGGUCGAACUUGUAACUGGGACCACUCCAACCAAUCCGAGUUCUUAAGUGAGUUGGACCAACUACUGUCCACAAACUCGCCGGAGAACUUGGUUCGUUGAAAGCGGACCUCGUU
....((.((((...(((.((((((((.....))))......((((((((((..(((((((((((........)))))...))))))..))))))))))...)))).)))..))))))... ( -41.10, z-score =  -2.27, R)
>droSim1.chrX 12162552 120 - 17042790
AUCAGACGACCCAACUUGUAACUAGGGCCACUCCAACCAAUCCGAGUUCUUAGGUGAGUUGGACAAGCGACUGUCCGCAAACUCGCCGGAGAACUUGGUUCGUUGGAAGCGGACCUCGUU
....((((((((............)))((.(((((((.((.((((((((((.(((((((((((((......)))))...)))))))).)))))))))))).))))).)).))...))))) ( -50.40, z-score =  -4.19, R)
>droSec1.super_37 264761 120 - 454039
AUCAGACGACCGAACUUGUAACUAGGGCCACUCCAACCAACCCGAGUUCUUAAGUGAGUUGGACAAGCUACUGUCCGCAAACUCGCCGGAGAACUUGGUUCGUUGGAAGACGACCUCGUU
....(((((..(..((((....))))..)..((((((.((((.((((((((..((((((((((((......)))))...)))))))..)))))))))))).))))))........))))) ( -43.30, z-score =  -3.06, R)
>droYak2.chrX 9884006 120 - 21770863
ACCAGACCACCGAACUUGUAUCUCGGCCCACUUCAACCAAUUAGAGUUCUUAAGUGAGUUUGGGAAGCUUCUGCCCACCAACACGCAUGAGAACUCGGUUCGAUGAGAGUGGGCCUCAUU
........................(((((((((((.(.((((.(((((((((.(((.(((.((...((....))...))))).))).))))))))))))).).))).))))))))..... ( -41.40, z-score =  -3.24, R)
>droEre2.scaffold_4690 7390598 120 + 18748788
ACCAGACGACCGUACUUGUAACUCGAGCCACUCCAACCAAUCAGAGUUCUUAAGUGAGUUUGCGAAGUCACUGCCCACAAACUCGCAUGAGAACUCGGUUUGUUGAAAGGGGGCCUCAUU
((.((((....)).)).)).....(((((.(((((((.((((.(((((((((.(((((((((.(...........).))))))))).))))))))))))).))))...))))).)))... ( -39.50, z-score =  -2.72, R)
>consensus
AUCAGACGACCGAACUUGUAACUAGGGCCACUCCAACCAAUCCGAGUUCUUAAGUGAGUUGGACAAGCUACUGUCCACAAACUCGCCGGAGAACUUGGUUCGUUGAAAGCGGACCUCGUU
........................((.((.(((((((.((((.((((((((..((((((((((((......))))))...))))))..)))))))))))).)))))).).)).))..... (-30.28 = -31.32 +   1.04)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:47:17 2011