Locus 2489

Sequence ID dm3.chr2L
Location 19,452,129 – 19,452,261
Length 132
Max. P 0.951708
window3419 window3420

overview

Window 9

Location 19,452,129 – 19,452,249
Length 120
Sequences 15
Columns 120
Reading direction reverse
Mean pairwise identity 76.57
Shannon entropy 0.53382
G+C content 0.49056
Mean single sequence MFE -40.51
Consensus MFE -15.83
Energy contribution -14.67
Covariance contribution -1.16
Combinations/Pair 1.78
Mean z-score -2.12
Structure conservation index 0.39
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.00
SVM RNA-class probability 0.870428
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19452129 120 - 23011544
AUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUGCUGCGACCCGACUCGUACAUCGGAUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACUCCCAAAACCGCAUGGUG
...(((((......((((((((.(((.....))).)))))))).......(((((((((.(((.(((......))).))).)))))))(((.((......)).)))......)).))))) ( -46.70, z-score =  -2.84, R)
>droSim1.chr2L 19134319 120 - 22036055
AUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUGCUGCGACCCGACUCGUACAUCGGAUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACUCGCAAAACCGCAUGGUG
...(((((...((.((((((((.(((.....))).))))))))...((.(.((((((((.(((.(((......))).))).)))))))).).))........))((......)).))))) ( -46.70, z-score =  -2.60, R)
>droSec1.super_7 3067597 120 - 3727775
AUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUGCUGCGACCCGACUCUUACAUCGGAUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACUCGCAAAACCGCAUGGUG
...(((((...((.((((((((.(((.....))).))))))))...((.((((((((((.(((.(((......))).))).)))))))))).))........))((......)).))))) ( -48.30, z-score =  -3.32, R)
>droYak2.chr2R 5949462 120 - 21139217
AUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUCCUGCGGCCCGACUCGUACAUCGGUUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAAGUCGCAAAACCGGAUGGUG
...(((((......(((((((..(((.....)))..)))))))(((((.(.((((((((((((.(((......))).)))))))))))).).))..((....)).......))).))))) ( -49.30, z-score =  -2.91, R)
>droEre2.scaffold_4845 17744432 120 + 22589142
AUGUACCAGAAGAAGUCGCAGCUGGAGCAUAUCCUCCUCCGACCCGACUCGUACAUCGGUUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACUCGCAAAACCGGAUGGUC
....((((......((((.((..(((.....)))..)).))))(((((.(.((((((((((((.(((......))).)))))))))))).).))..((....)).......))).)))). ( -41.10, z-score =  -1.30, R)
>droAna3.scaffold_12916 4054542 120 + 16180835
AUGUACCAGAAAAAGUCCCAGCUGGAACACAUCCUGCUGCGACCGGACUCGUACAUUGGCUCUGUGGAGUACACCAAGGAGCUGAUGUGGGUGUAUGACUUUGAGAAGAACCGGAUGGUG
...(((((.......((.((((.(((.....))).)))).))((((((.(.(((((..(((((.(((......))).)))))..))))).).))....(((....)))..)))).))))) ( -44.50, z-score =  -2.91, R)
>dp4.chr4_group4 552667 120 + 6586962
AUGUACCAGAAGAAGUCGCAGCUGGAGCACAUUCUGCUGCGGCCCGACUCGUACAUCGGCUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUCUACGACUUUGAGAAGGCGCGCAUGAUC
..(..((....(((((((..((((.((((.....)))).))))..(((((..(((((((((((.(((......))).))))))))))))))))..))))))).....))..)........ ( -52.00, z-score =  -3.19, R)
>droPer1.super_16 859615 120 - 1990440
AUGUACCAGAAGAAGUCGCAGCUGGAGCACAUUCUGCUGCGGCCCGACUCGUACAUCGGCUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUCUACGACUUUGAGAAGGCGCGCAUGAUC
..(..((....(((((((..((((.((((.....)))).))))..(((((..(((((((((((.(((......))).))))))))))))))))..))))))).....))..)........ ( -52.00, z-score =  -3.19, R)
>droWil1.scaffold_180772 7171607 120 - 8906247
AUGUAUCAGAAGAAGACCCAAUUGGAGCAUAUUCUACUACGUCCCGAUUCGUAUAUUGGCUCCGUUGAGUAUACCAAAGAGCUAAUGUGGGUCUAUGAUUUCGAAAACAAUCGUAUGGUG
...(((((.....((((((((((((..(.((......)).)..))))))...((((((((((..(((.(....)))).))))))))))))))))((((((........)))))).))))) ( -31.90, z-score =  -1.80, R)
>droVir3.scaffold_12723 632236 120 - 5802038
AUGUACCAGAAGAAAUCGCAGCUGGAGCAUAUUCUCUUGCGUCCGGAUUCGUAUAUUGGAUCCGUGGAGUUUACCAAGGAGCUAAUGUGGGUACAUGAUGUCGAAAAGAAUCGCAUGGUG
(((((((.........((...((((((((........))).)))))...))((((((((.(((.(((......))).))).))))))))))))))).(((.(((......)))))).... ( -36.90, z-score =  -1.73, R)
>droMoj3.scaffold_6500 29143285 120 - 32352404
AUGUAUCAGAAAAAAUCGCAAUUGGAGCACAUCUUGUUGCGUCCAGAUUCGUACAUUGGCUCGGUGGAAUUUACAAAGGAGUUAAUGUGGGUACACGAUGCAGAAAAGAAUCGAAUGGUA
.((((((.(((.....((((((.(((.....))).))))))......))).(((((((((((..((.......))...)))))))))))))))))((((.(......).))))....... ( -32.00, z-score =  -1.76, R)
>droGri2.scaffold_15252 4179294 120 - 17193109
AUGUACCAGAAGAAAUCGCAGCUGGAGCACAUUCUGUUGCGACCGGACUCGUAUAUUGGUUCCGUUGAGUUUACCAAGGAGCUGAUGUGGGUUCUUGAUCUUGAGAAAAAUCGCAUGGUU
....((((...((..(((((((.(((.....))).)))))))..((((((..((((..(((((.(((.(....)))))))))..))))))))))................))...)))). ( -36.60, z-score =  -1.42, R)
>anoGam1.chr3R 21133030 120 - 53272125
AUUUACCAGAAGAAAUCGCAGCUGGAGCACAUCCUGCUCCGACCGGACACAUACAUCGGGUCGGUCGAGAUGGUAAAGGAACCGAUGUGGAUAUUCGACAAGGAGGCGAACAAGAUGGUG
...(((((.......((((..((((((((.....))))))((((.((........)).)))).((((((.((((......))))((....)).))))))..))..))))......))))) ( -36.12, z-score =  -1.26, R)
>apiMel3.Group3 12312761 120 + 12341916
AUAUAUCAGAAAAAAUCUCAAUUAGAACAUAUUUUAUUGCGUCCUGAUACUUAUAUUGGUUCUGUUGAACCAGUAACAGAAAUUAUGUGGGUUUAUGACAAAGAAAAAGAAUCGAUGACA
...((((........(((.....)))..............(((.(((.((((((((...((((((((......))))))))...))))))))))).)))..............))))... ( -21.10, z-score =  -0.49, R)
>triCas2.ChLG3 12606681 120 + 32080666
ACAUACCAGAAGAAGUCACAGUUGGAACAUAUCUUGCUCCGUCCUGACACCUACAUCGGUUCUGUCGAAAAAGUGGAUGAGAAUAUGUGGGUGUACGAUAGAGACACAGAGAUGAUUAUU
.....((((..(......)..))))..(((.((((((((..((...((((((((((..((((((((.(.....).))).)))))))))))))))..))..))).)).))).)))...... ( -32.40, z-score =  -1.10, R)
>consensus
AUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUGCUGCGACCCGACUCGUACAUCGGCUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACGAGAAAAACCGCAUGGUG
..............(((..(((.(((.....))).)))...........(.((((((((.((..(((......)))..)).)))))))).).....)))..................... (-15.83 = -14.67 +  -1.16)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 19,452,141 – 19,452,261
Length 120
Sequences 15
Columns 120
Reading direction reverse
Mean pairwise identity 78.28
Shannon entropy 0.49209
G+C content 0.49041
Mean single sequence MFE -40.58
Consensus MFE -18.31
Energy contribution -16.83
Covariance contribution -1.48
Combinations/Pair 1.78
Mean z-score -2.32
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.57
SVM RNA-class probability 0.951708
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19452141 120 - 23011544
UCCAUCGAACAGAUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUGCUGCGACCCGACUCGUACAUCGGAUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACUCCCAA
..((((.....(((((((.((..(..((((((((.(((.....))).)))))))).)..)).)))))))((.(((.(((......))).))).))))))((((.((......)).)))). ( -48.50, z-score =  -3.62, R)
>droSim1.chr2L 19134331 120 - 22036055
UCCAUCGAACAGAUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUGCUGCGACCCGACUCGUACAUCGGAUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACUCGCAA
(((((.((.(.(((((((.((..(..((((((((.(((.....))).)))))))).)..)).))))))).).)).)))))((((......))))...(((((((........))))))). ( -49.40, z-score =  -3.61, R)
>droSec1.super_7 3067609 120 - 3727775
UCCAUCGAACAGAUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUGCUGCGACCCGACUCUUACAUCGGAUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACUCGCAA
(((((.((.(.((((((..((..(..((((((((.(((.....))).)))))))).)..))..)))))).).)).)))))((((......))))...(((((((........))))))). ( -45.80, z-score =  -2.84, R)
>droYak2.chr2R 5949474 120 - 21139217
UCCAUCGAACAGAUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUCCUGCGGCCCGACUCGUACAUCGGUUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAAGUCGCAA
..((((.....))))...........(((((((..(((.....)))..))))))).((((((.((((((((((((.(((......))).)))))))))))).)((.....)))))))... ( -45.80, z-score =  -2.32, R)
>droEre2.scaffold_4845 17744444 120 + 22589142
UCCAUCGAACAGAUGUACCAGAAGAAGUCGCAGCUGGAGCAUAUCCUCCUCCGACCCGACUCGUACAUCGGUUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACUCGCAA
(((((.((((.(((((((.((..(..((((.((..(((.....)))..)).)))).)..)).))))))).)))).)))))((((......))))...(((((((........))))))). ( -43.70, z-score =  -2.50, R)
>droAna3.scaffold_12916 4054554 120 + 16180835
UCCAUCGAACAGAUGUACCAGAAAAAGUCCCAGCUGGAACACAUCCUGCUGCGACCGGACUCGUACAUUGGCUCUGUGGAGUACACCAAGGAGCUGAUGUGGGUGUAUGACUUUGAGAAG
..((((.....))))...((((....(((.((((.(((.....))).)))).)))((.((.(.(((((..(((((.(((......))).)))))..))))).).)).))..))))..... ( -40.90, z-score =  -2.18, R)
>dp4.chr4_group4 552679 120 + 6586962
UCCAUCGAGCAGAUGUACCAGAAGAAGUCGCAGCUGGAGCACAUUCUGCUGCGGCCCGACUCGUACAUCGGCUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUCUACGACUUUGAGAAG
..((((.....))))........(((((((..((((.((((.....)))).))))..(((((..(((((((((((.(((......))).))))))))))))))))..)))))))...... ( -51.20, z-score =  -3.37, R)
>droPer1.super_16 859627 120 - 1990440
UCCAUCGAGCAGAUGUACCAGAAGAAGUCGCAGCUGGAGCACAUUCUGCUGCGGCCCGACUCGUACAUCGGCUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUCUACGACUUUGAGAAG
..((((.....))))........(((((((..((((.((((.....)))).))))..(((((..(((((((((((.(((......))).))))))))))))))))..)))))))...... ( -51.20, z-score =  -3.37, R)
>droWil1.scaffold_180772 7171619 120 - 8906247
UCCAUCGAGCAGAUGUAUCAGAAGAAGACCCAAUUGGAGCAUAUUCUACUACGUCCCGAUUCGUAUAUUGGCUCCGUUGAGUAUACCAAAGAGCUAAUGUGGGUCUAUGAUUUCGAAAAC
..((((.....)))).((((.....((((((((((((..(.((......)).)..))))))...((((((((((..(((.(....)))).)))))))))))))))).))))......... ( -31.80, z-score =  -1.85, R)
>droVir3.scaffold_12723 632248 120 - 5802038
UCCAUCGAACAGAUGUACCAGAAGAAAUCGCAGCUGGAGCAUAUUCUCUUGCGUCCGGAUUCGUAUAUUGGAUCCGUGGAGUUUACCAAGGAGCUAAUGUGGGUACAUGAUGUCGAAAAG
....((((.((.(((((((.........((...((((((((........))).)))))...))((((((((.(((.(((......))).))).)))))))))))))))..)))))).... ( -39.60, z-score =  -2.80, R)
>droMoj3.scaffold_6500 29143297 120 - 32352404
UCCAUCGAGCAGAUGUAUCAGAAAAAAUCGCAAUUGGAGCACAUCUUGUUGCGUCCAGAUUCGUACAUUGGCUCGGUGGAAUUUACAAAGGAGUUAAUGUGGGUACACGAUGCAGAAAAG
((((((((((.(((((((..(((.....((((((.(((.....))).))))))......)))))))))).))))))))))............((...((((....))))..))....... ( -38.90, z-score =  -3.58, R)
>droGri2.scaffold_15252 4179306 120 - 17193109
UCCAUCGAACAGAUGUACCAGAAGAAAUCGCAGCUGGAGCACAUUCUGUUGCGACCGGACUCGUAUAUUGGUUCCGUUGAGUUUACCAAGGAGCUGAUGUGGGUUCUUGAUCUUGAGAAA
(((.((((((((((((.((((..(....)....)))).)))...)))))).)))..)))..(.(((((..(((((.(((.(....)))))))))..))))).)(((((......))))). ( -36.90, z-score =  -1.47, R)
>anoGam1.chr3R 21133042 120 - 53272125
UCGAUCGAAAAGAUUUACCAGAAGAAAUCGCAGCUGGAGCACAUCCUGCUCCGACCGGACACAUACAUCGGGUCGGUCGAGAUGGUAAAGGAACCGAUGUGGAUAUUCGACAAGGAGGCG
..(.(((((........((((..(....)....))))..((((((((...((((((.((........)).))))))...))..(((......)))))))))....))))))......... ( -32.90, z-score =  -0.23, R)
>apiMel3.Group3 12312773 119 + 12341916
-CUAUUGAAGGCAUAUAUCAGAAAAAAUCUCAAUUAGAACAUAUUUUAUUGCGUCCUGAUACUUAUAUUGGUUCUGUUGAACCAGUAACAGAAAUUAUGUGGGUUUAUGACAAAGAAAAA
-.........(((......(((.....)))....(((((....))))).)))(((.(((.((((((((...((((((((......))))))))...))))))))))).)))......... ( -20.00, z-score =  -0.18, R)
>triCas2.ChLG3 12606693 119 + 32080666
-CUAUUGAGGAAACAUACCAGAAGAAGUCACAGUUGGAACAUAUCUUGCUCCGUCCUGACACCUACAUCGGUUCUGUCGAAAAAGUGGAUGAGAAUAUGUGGGUGUACGAUAGAGACACA
-((((((.(....)................(((.((((.((.....)).))))..)))((((((((((..((((((((.(.....).))).))))))))))))))).))))))....... ( -32.10, z-score =  -0.93, R)
>consensus
UCCAUCGAACAGAUGUACCAGAAGAAGUCGCAGCUGGAGCACAUCCUGCUGCGACCCGACUCGUACAUCGGCUCCGUGGAGUUCACCAAGGAGCUGAUGUGGGUGUAUGACAACGAGAAA
..((((.....))))...........(((..(((.(((.....))).)))...........(.((((((((.((..(((......)))..)).)))))))).).....)))......... (-18.31 = -16.83 +  -1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:52:08 2011