Locus 15441

Sequence ID dm3.chrX
Location 19,051,775 – 19,051,905
Length 130
Max. P 0.874889
window21275 window21276 window21277 window21278

overview

Window 5

Location 19,051,775 – 19,051,886
Length 111
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 78.51
Shannon entropy 0.38675
G+C content 0.43045
Mean single sequence MFE -31.20
Consensus MFE -19.27
Energy contribution -20.83
Covariance contribution 1.56
Combinations/Pair 1.22
Mean z-score -1.88
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.02
SVM RNA-class probability 0.874889
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19051775 111 + 22422827
UGUGGAUUGUGGGUAAUCCGCUGAUUUGCCUAUG--CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGCGCGACAAAUGAAUAAAUGACGAUGAAUGCCAUUGUAAAAGCAAU
.((((((((....))))))))....((((...((--(.((((((((((((.((((....((((..((......))..))))..)))).))))))))..)))))))...)))). ( -29.90, z-score =  -0.79, R)
>droEre2.scaffold_4690 9315701 101 + 18748788
CGUGGAUUGUAAAUUAUCCGCGGAUUUGCCUAUG--CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGC--GACAAAUGAAUGAAUGACGAUGAAUGU--UUACCAU------
.((((((........))))))(((((.((....)--).))).((((((((.(((((((..(((..((..--..))..)))))))))).))))))))..--...))..------ ( -32.20, z-score =  -2.78, R)
>droYak2.chrX 17643322 101 + 21770863
CGUGGAUUGUAAAUUAAGCGCGGAUUUGCCUAUG--CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGC--GACAAAUGAAUGAAUGACGAUGAAUGU--UUACCAU------
.((((...(((((((.......))))))).....--......((((((((.(((((((..(((..((..--..))..)))))))))).))))))))..--...))))------ ( -28.30, z-score =  -1.59, R)
>droSec1.super_8 1341124 102 + 3762037
CGUGGAUUGUGGGUAAUCCGCGGAUUUGCCUAUG--CCGCUGAUUCAUCGCCGUUCAUUUUCAGAUGGC--GACAAGUGAAUGAAUGACGAUGAAUUGCAU-ACAAU------
.((((...((((((((((....)).)))))))).--)))).(((((((((.(((((((..(((..((..--..))..)))))))))).)))))))))....-.....------ ( -37.60, z-score =  -3.10, R)
>droSim1.chrX_random 4946916 102 + 5698898
CGUGGAUUGCGGGUAAUCCGCGGAUUUGCCUAUG--CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGC--GACAAAUGAAUGAAUGACGAUGAAUUGCUU-ACAAU------
(((((((((....))))))))).(((.((....)--).)))(((((((((.(((((((..(((..((..--..))..)))))))))).)))))))))....-.....------ ( -35.30, z-score =  -2.72, R)
>dp4.chrXL_group1e 10744896 101 + 12523060
--CGGGGCAUGGAAAUUCUAUGGAUUUGCCAAUGGCCCAAUGAAUCAUCGGU-UCGAGUGGUAGAGUGUGUGACAAAUGAAUGAAUGAUGAUGAAUGU--UUACAA-------
--.(((.((((((((((.....))))).)).))).))).((..(((((((((-(((..((.............))..)))))...)))))))..))..--......------- ( -23.92, z-score =  -0.33, R)
>consensus
CGUGGAUUGUGGAUAAUCCGCGGAUUUGCCUAUG__CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGC__GACAAAUGAAUGAAUGACGAUGAAUGU__UUACAAU______
(((((((........)))))))....................((((((((.(((((((..(((..((......))..)))))))))).))))))))................. (-19.27 = -20.83 +   1.56)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,051,775 – 19,051,886
Length 111
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 78.51
Shannon entropy 0.38675
G+C content 0.43045
Mean single sequence MFE -25.02
Consensus MFE -13.74
Energy contribution -15.55
Covariance contribution 1.81
Combinations/Pair 1.14
Mean z-score -1.64
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.02
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chrX 19051775 111 - 22422827
AUUGCUUUUACAAUGGCAUUCAUCGUCAUUUAUUCAUUUGUCGCGCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG--CAUAGGCAAAUCAGCGGAUUACCCACAAUCCACA
.((((((...(.(((..((((((((((.((((((((..((......))..)))..))))).))))))))))))).).--...))))))....(.(((((......))))).). ( -28.40, z-score =  -1.71, R)
>droEre2.scaffold_4690 9315701 101 - 18748788
------AUGGUAA--ACAUUCAUCGUCAUUCAUUCAUUUGUC--GCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG--CAUAGGCAAAUCCGCGGAUAAUUUACAAUCCACG
------...((((--(.((((((((((.((((((((..((..--..))..)))..))))).)))))))))).(((.(--(...((.....)))).)))..)))))........ ( -25.00, z-score =  -1.65, R)
>droYak2.chrX 17643322 101 - 21770863
------AUGGUAA--ACAUUCAUCGUCAUUCAUUCAUUUGUC--GCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG--CAUAGGCAAAUCCGCGCUUAAUUUACAAUCCACG
------...((((--(.((((((((((.((((((((..((..--..))..)))..))))).))))))))))......--..(((((........))))).)))))........ ( -25.10, z-score =  -2.14, R)
>droSec1.super_8 1341124 102 - 3762037
------AUUGU-AUGCAAUUCAUCGUCAUUCAUUCACUUGUC--GCCAUCUGAAAAUGAACGGCGAUGAAUCAGCGG--CAUAGGCAAAUCCGCGGAUUACCCACAAUCCACG
------.((((-((((.((((((((((.((((((((..((..--..))..)))..))))).)))))))))).....)--)))..))))...((.(((((......))))).)) ( -29.60, z-score =  -2.53, R)
>droSim1.chrX_random 4946916 102 - 5698898
------AUUGU-AAGCAAUUCAUCGUCAUUCAUUCAUUUGUC--GCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG--CAUAGGCAAAUCCGCGGAUUACCCGCAAUCCACG
------.((((-..((.((((((((((.((((((((..((..--..))..)))..))))).)))))))))).....)--)....))))....((((.....))))........ ( -28.90, z-score =  -2.21, R)
>dp4.chrXL_group1e 10744896 101 - 12523060
-------UUGUAA--ACAUUCAUCAUCAUUCAUUCAUUUGUCACACACUCUACCACUCGA-ACCGAUGAUUCAUUGGGCCAUUGGCAAAUCCAUAGAAUUUCCAUGCCCCG--
-------......--......((((((.(((...........................))-)..)))))).....((((...(((.((.((....)).)).))).))))..-- ( -13.13, z-score =   0.42, R)
>consensus
______AUUGUAA__ACAUUCAUCGUCAUUCAUUCAUUUGUC__GCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG__CAUAGGCAAAUCCGCGGAUUACCCACAAUCCACG
.................((((((((((.((((((((..((......))..)))..))))).))))))))))....((......((..((((....))))..)).....))... (-13.74 = -15.55 +   1.81)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,051,809 – 19,051,905
Length 96
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 78.69
Shannon entropy 0.37540
G+C content 0.38195
Mean single sequence MFE -21.47
Consensus MFE -14.15
Energy contribution -15.23
Covariance contribution 1.08
Combinations/Pair 1.15
Mean z-score -1.70
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.83
SVM RNA-class probability 0.829130
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19051809 96 + 22422827
--CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGCGCGACAAAUGAAUAAAUGACGAUGAAUGCCAUUGUAAAAGCAAUAUA--CUGUAAUUCACAAGAA
--.(((((((((((((.((((....((((..((......))..))))..)))).))))))))..))))).....(((.....--.)))............ ( -18.70, z-score =  -0.36, R)
>droEre2.scaffold_4690 9315735 86 + 18748788
--CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGCG--ACAAAUGAAUGAAUGACGAUGAAUGUUU--------ACCAUUUG--CUGUAAUUCAGAAGAA
--......((((((((.(((((((..(((..((...--.))..)))))))))).))))))))....--------....(((.--(((.....))).))). ( -23.00, z-score =  -2.07, R)
>droYak2.chrX 17643356 88 + 21770863
--CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGCG--ACAAAUGAAUGAAUGACGAUGAAUGUUU--------ACCAUGUGUACUGUAAUUCAGAAGAA
--......((((((((.(((((((..(((..((...--.))..)))))))))).))))))))....--------..........(((.....)))..... ( -23.20, z-score =  -1.92, R)
>droSec1.super_8 1341158 87 + 3762037
--CCGCUGAUUCAUCGCCGUUCAUUUUCAGAUGGCG--ACAAGUGAAUGAAUGACGAUGAAUUGCAU-------ACAAUGUA--CUGUAAUUCACAAGAA
--..((.(((((((((.(((((((..(((..((...--.))..)))))))))).))))))))))).(-------(((.....--.))))........... ( -25.90, z-score =  -2.74, R)
>droSim1.chrX_random 4946950 87 + 5698898
--CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGCG--ACAAAUGAAUGAAUGACGAUGAAUUGCUU-------ACAAUUUA--CUGUAAUUCACAAGAA
--..((.(((((((((.(((((((..(((..((...--.))..)))))))))).)))))))))..((-------(((.....--.))))).))....... ( -24.50, z-score =  -3.26, R)
>dp4.chrXL_group1e 10744928 85 + 12523060
GCCCAAUGAAUCAUCGGU-UCGAGUGGUAGAGUGUGUGACAAAUGAAUGAAUGAUGAUGAAUGUUU-----------ACAAA---UGUAAUUGAAAAGGC
(((..((..(((((((((-(((..((.............))..)))))...)))))))..))..((-----------((...---.)))).......))) ( -13.52, z-score =   0.18, R)
>consensus
__CCGAUGAUUCAUCGCCGUUCAUUUUCAGAUGGCG__ACAAAUGAAUGAAUGACGAUGAAUGUCU________ACAAUAUA__CUGUAAUUCACAAGAA
........((((((((.(((((((..(((..((......))..)))))))))).))))))))...................................... (-14.15 = -15.23 +   1.08)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,051,809 – 19,051,905
Length 96
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 78.69
Shannon entropy 0.37540
G+C content 0.38195
Mean single sequence MFE -19.52
Consensus MFE -12.95
Energy contribution -14.37
Covariance contribution 1.42
Combinations/Pair 1.10
Mean z-score -1.67
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.77
SVM RNA-class probability 0.812892
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19051809 96 - 22422827
UUCUUGUGAAUUACAG--UAUAUUGCUUUUACAAUGGCAUUCAUCGUCAUUUAUUCAUUUGUCGCGCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG--
..((.((((.......--.....((((........))))(((((((((.((((((((..((......))..)))..))))).))))))))))))).))-- ( -21.40, z-score =  -1.02, R)
>droEre2.scaffold_4690 9315735 86 - 18748788
UUCUUCUGAAUUACAG--CAAAUGGU--------AAACAUUCAUCGUCAUUCAUUCAUUUGU--CGCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG--
.....((((.((((..--......))--------))..((((((((((.((((((((..((.--...))..)))..))))).))))))))))..))))-- ( -21.30, z-score =  -2.36, R)
>droYak2.chrX 17643356 88 - 21770863
UUCUUCUGAAUUACAGUACACAUGGU--------AAACAUUCAUCGUCAUUCAUUCAUUUGU--CGCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG--
.....((((.((((.((....)).))--------))..((((((((((.((((((((..((.--...))..)))..))))).))))))))))..))))-- ( -20.50, z-score =  -1.98, R)
>droSec1.super_8 1341158 87 - 3762037
UUCUUGUGAAUUACAG--UACAUUGU-------AUGCAAUUCAUCGUCAUUCAUUCACUUGU--CGCCAUCUGAAAAUGAACGGCGAUGAAUCAGCGG--
...........(((((--....))))-------)(((.((((((((((.((((((((..((.--...))..)))..))))).))))))))))..))).-- ( -22.30, z-score =  -1.72, R)
>droSim1.chrX_random 4946950 87 - 5698898
UUCUUGUGAAUUACAG--UAAAUUGU-------AAGCAAUUCAUCGUCAUUCAUUCAUUUGU--CGCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG--
..((.((((.((((((--....))))-------))....(((((((((.((((((((..((.--...))..)))..))))).))))))))))))).))-- ( -22.70, z-score =  -2.52, R)
>dp4.chrXL_group1e 10744928 85 - 12523060
GCCUUUUCAAUUACA---UUUGU-----------AAACAUUCAUCAUCAUUCAUUCAUUUGUCACACACUCUACCACUCGA-ACCGAUGAUUCAUUGGGC
((((......((((.---...))-----------))......((((((.(((...........................))-)..)))))).....)))) (  -8.93, z-score =  -0.43, R)
>consensus
UUCUUGUGAAUUACAG__UAAAUUGU________AAACAUUCAUCGUCAUUCAUUCAUUUGU__CGCCAUCUGAAAAUGAACGGCGAUGAAUCAUCGG__
......................................((((((((((.((((((((..((......))..)))..))))).))))))))))........ (-12.95 = -14.37 +   1.42)

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 01:59:22 2011