Locus 14243

Sequence ID dm3.chrX
Location 12,119,154 – 12,119,273
Length 119
Max. P 0.985546
window19611 window19612 window19613 window19614

overview

Window 1

Location 12,119,154 – 12,119,251
Length 97
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 76.22
Shannon entropy 0.45672
G+C content 0.44649
Mean single sequence MFE -28.06
Consensus MFE -14.81
Energy contribution -17.03
Covariance contribution 2.23
Combinations/Pair 1.15
Mean z-score -1.95
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.20
SVM RNA-class probability 0.908286
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12119154 97 + 22422827
CCCAUGAUUAUUUUGAGUGAUCUUCUUGGAAAAAAGAUGCUUGAACCCGCUGGAUUUUCUUCGCUGGGGGAAAUCU--ACAGCUGGAAAAAUGCCAGCU
...........((..(((.(((((.((....))))))))))..))...(((((.((((((..((((..((....))--.)))).))))))...))))). ( -27.40, z-score =  -1.58, R)
>droSim1.chrX_random 3301168 96 + 5698898
CCCAUGAUUAUUUUGAGUGAUCUUCUUGGAAAAA-GAUGCUUGAACCCGCUGGAUUUUCUUCGCUGGGGGAAAUCU--UCAGCUGGAAAAAUGCCAGCU
...........((..(((.(((((........))-))))))..))...(((((.((((((..(((((((.....))--))))).))))))...))))). ( -29.00, z-score =  -1.69, R)
>droSec1.super_45 137302 95 + 245362
CCCAUGAUUAUUUUGAGUGAUCUUCUUGGAAAA--GAUGCUUGAACCCGCUGGAUUUUCUUCGCUGGGGGAAAUCU--UCAGCUGGAAAAAUGCCAGCU
...........((..(((.(((((.......))--))))))..))...(((((.((((((..(((((((.....))--))))).))))))...))))). ( -28.70, z-score =  -1.60, R)
>droYak2.chrX 20029030 96 - 21770863
CCCAUGAUUAUUUUGAGUGAUCUUCUUGGAAAAA-GAUACUUGAACUCGCUGGAUUUUCUCCGCUGGGGGAAAUCU--UCUGCUGGAAAAAUGCCAGCU
...........((..((((.((((........))-))))))..))...((((((((((.(((((.(((((....))--))))).)))))))).))))). ( -26.80, z-score =  -1.77, R)
>droEre2.scaffold_4690 4025994 96 - 18748788
CCCAUGAUUAUUUUGAGUGAUCUUCUUGGAAAAA-GAUACUUGAACUCGCUGGAUUUUCUUCGCUGGGGGAAAUCU--UCGGCUGGAAAAAUGCCAGCU
...........((..((((.((((........))-))))))..))...(((((.((((((..(((((((.....))--))))).))))))...))))). ( -28.30, z-score =  -2.05, R)
>droAna3.scaffold_13335 2098330 82 - 3335858
GAAGAAAGAAAAGCGAAGACUCUUCUCGGAAGAAUGUGAA--GAAAAUGUGGGAAGAGUCUGGCUGGCCCGGACCGGACCAGCU---------------
................((((((((((((.(..........--.....).))))))))))))((((((.(((...))).))))))--------------- ( -28.16, z-score =  -2.98, R)
>consensus
CCCAUGAUUAUUUUGAGUGAUCUUCUUGGAAAAA_GAUACUUGAACCCGCUGGAUUUUCUUCGCUGGGGGAAAUCU__UCAGCUGGAAAAAUGCCAGCU
.(((.((((((.....))))))....)))...................(((((.((((((..((((..((....))...)))).))))))...))))). (-14.81 = -17.03 +   2.23)

alignment

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secondary structure

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dotplot

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Window 2

Location 12,119,154 – 12,119,251
Length 97
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 76.22
Shannon entropy 0.45672
G+C content 0.44649
Mean single sequence MFE -23.05
Consensus MFE -11.56
Energy contribution -13.37
Covariance contribution 1.81
Combinations/Pair 1.14
Mean z-score -1.63
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.31
SVM RNA-class probability 0.639072
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12119154 97 - 22422827
AGCUGGCAUUUUUCCAGCUGU--AGAUUUCCCCCAGCGAAGAAAAUCCAGCGGGUUCAAGCAUCUUUUUUCCAAGAAGAUCACUCAAAAUAAUCAUGGG
.(((((.((((((...((((.--.(.....)..))))...)))))))))))((((....(.(((((((.....)))))))))))).............. ( -23.80, z-score =  -1.41, R)
>droSim1.chrX_random 3301168 96 - 5698898
AGCUGGCAUUUUUCCAGCUGA--AGAUUUCCCCCAGCGAAGAAAAUCCAGCGGGUUCAAGCAUC-UUUUUCCAAGAAGAUCACUCAAAAUAAUCAUGGG
.(((((.((((((...((((.--..........))))...)))))))))))((((....(.(((-((((....)))))))))))).............. ( -22.80, z-score =  -0.85, R)
>droSec1.super_45 137302 95 - 245362
AGCUGGCAUUUUUCCAGCUGA--AGAUUUCCCCCAGCGAAGAAAAUCCAGCGGGUUCAAGCAUC--UUUUCCAAGAAGAUCACUCAAAAUAAUCAUGGG
.(((((.((((((...((((.--..........))))...)))))))))))((((....(.(((--(((.....))))))))))).............. ( -22.50, z-score =  -0.81, R)
>droYak2.chrX 20029030 96 + 21770863
AGCUGGCAUUUUUCCAGCAGA--AGAUUUCCCCCAGCGGAGAAAAUCCAGCGAGUUCAAGUAUC-UUUUUCCAAGAAGAUCACUCAAAAUAAUCAUGGG
.(((((.......)))))...--........(((((((((.....))).))((((....(.(((-((((....))))))))))))..........)))) ( -23.80, z-score =  -2.02, R)
>droEre2.scaffold_4690 4025994 96 + 18748788
AGCUGGCAUUUUUCCAGCCGA--AGAUUUCCCCCAGCGAAGAAAAUCCAGCGAGUUCAAGUAUC-UUUUUCCAAGAAGAUCACUCAAAAUAAUCAUGGG
.(((((.((((((...((.(.--..........).))...)))))))))))((((....(.(((-((((....)))))))))))).............. ( -19.10, z-score =  -0.82, R)
>droAna3.scaffold_13335 2098330 82 + 3335858
---------------AGCUGGUCCGGUCCGGGCCAGCCAGACUCUUCCCACAUUUUC--UUCACAUUCUUCCGAGAAGAGUCUUCGCUUUUCUUUCUUC
---------------.(((((((((...))))))))).(((((((((.(........--.............).)))))))))................ ( -26.30, z-score =  -3.89, R)
>consensus
AGCUGGCAUUUUUCCAGCUGA__AGAUUUCCCCCAGCGAAGAAAAUCCAGCGGGUUCAAGCAUC_UUUUUCCAAGAAGAUCACUCAAAAUAAUCAUGGG
.(((((.((((((...((((.............))))...)))))))))))...................(((.((..((........))..)).))). (-11.56 = -13.37 +   1.81)

alignment

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secondary structure

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dotplot

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Window 3

Location 12,119,181 – 12,119,273
Length 92
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 75.31
Shannon entropy 0.45015
G+C content 0.46452
Mean single sequence MFE -29.83
Consensus MFE -16.05
Energy contribution -17.50
Covariance contribution 1.45
Combinations/Pair 1.26
Mean z-score -2.50
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.21
SVM RNA-class probability 0.985546
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12119181 92 + 22422827
GGAAAAAAGAUGCUUGAACCCGCUGGAUUUUCUUCGCUGGGGGAAAUCUACAGCUGGAAAAAUGCCAGCUGUU-UGAUGCAUCAUGAUCUUCU-------
........((((((..(((..(((((.((((((..((((..((....)).)))).))))))...))))).)))-..).)))))..........------- ( -31.30, z-score =  -3.19, R)
>droSim1.chrX_random 3301195 98 + 5698898
-GGAAAAAGAUGCUUGAACCCGCUGGAUUUUCUUCGCUGGGGGAAAUCUUCAGCUGGAAAAAUGCCAGCUGUU-UGAUGCAUCAUGAUCCAUGAUCUUCU
-(((..(.((((((..(((..(((((.((((((..(((((((.....))))))).))))))...))))).)))-..).))))).)..))).......... ( -36.30, z-score =  -3.55, R)
>droSec1.super_45 137329 97 + 245362
--GGAAAAGAUGCUUGAACCCGCUGGAUUUUCUUCGCUGGGGGAAAUCUUCAGCUGGAAAAAUGCCAGCUGUU-UGAUGCAUCAUGAUCCAUGAUCUUCG
--.(((..((((((..(((..(((((.((((((..(((((((.....))))))).))))))...))))).)))-..).)))))..((((...))))))). ( -35.80, z-score =  -3.35, R)
>droYak2.chrX 20029057 91 - 21770863
-GGAAAAAGAUACUUGAACUCGCUGGAUUUUCUCCGCUGGGGGAAAUCUUCUGCUGGAAAAAUGCCAGCUGCU-UGAUGCAUCAUGAUCUUCU-------
-.....(((((...(((....((((((((((.(((((.(((((....))))))).)))))))).)))))(((.-....))))))..)))))..------- ( -27.00, z-score =  -2.33, R)
>droEre2.scaffold_4690 4026021 91 - 18748788
-GGAAAAAGAUACUUGAACUCGCUGGAUUUUCUUCGCUGGGGGAAAUCUUCGGCUGGAAAAAUGCCAGCUGUU-UGAUGCAUCAUGAUCUUCU-------
-.......(((.((..(((..(((((.((((((..(((((((.....))))))).))))))...))))).)))-..).).)))..........------- ( -26.80, z-score =  -2.21, R)
>droAna3.scaffold_13335 2098357 78 - 3335858
-GGAAGAAUGUGAA-GAAAAUGUGGGAAGAGUCUGGCUGG-------CCCGGACCGGA------CCAGCUGCCAUGAUGGCUCAUGAUCUGUU-------
-...(((.(((((.-...................((((((-------.(((...))).------))))))(((.....)))))))).)))...------- ( -21.80, z-score =  -0.34, R)
>consensus
_GGAAAAAGAUGCUUGAACCCGCUGGAUUUUCUUCGCUGGGGGAAAUCUUCAGCUGGAAAAAUGCCAGCUGUU_UGAUGCAUCAUGAUCUUCU_______
........(((...(((....(((((.((((((..(((((((.....))))))).))))))...)))))(((......))))))..)))........... (-16.05 = -17.50 +   1.45)

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 12,119,181 – 12,119,273
Length 92
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 75.31
Shannon entropy 0.45015
G+C content 0.46452
Mean single sequence MFE -25.31
Consensus MFE -12.13
Energy contribution -13.49
Covariance contribution 1.36
Combinations/Pair 1.24
Mean z-score -2.29
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.38
SVM RNA-class probability 0.933326
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12119181 92 - 22422827
-------AGAAGAUCAUGAUGCAUCA-AACAGCUGGCAUUUUUCCAGCUGUAGAUUUCCCCCAGCGAAGAAAAUCCAGCGGGUUCAAGCAUCUUUUUUCC
-------.(((((....(((((....-(((.(((((.((((((...((((..(.....)..))))...)))))))))))..)))...)))))..))))). ( -28.70, z-score =  -3.43, R)
>droSim1.chrX_random 3301195 98 - 5698898
AGAAGAUCAUGGAUCAUGAUGCAUCA-AACAGCUGGCAUUUUUCCAGCUGAAGAUUUCCCCCAGCGAAGAAAAUCCAGCGGGUUCAAGCAUCUUUUUCC-
..........(((....(((((....-(((.(((((.((((((...((((...........))))...)))))))))))..)))...)))))....)))- ( -27.90, z-score =  -1.81, R)
>droSec1.super_45 137329 97 - 245362
CGAAGAUCAUGGAUCAUGAUGCAUCA-AACAGCUGGCAUUUUUCCAGCUGAAGAUUUCCCCCAGCGAAGAAAAUCCAGCGGGUUCAAGCAUCUUUUCC--
..........(((....(((((....-(((.(((((.((((((...((((...........))))...)))))))))))..)))...)))))...)))-- ( -27.50, z-score =  -1.68, R)
>droYak2.chrX 20029057 91 + 21770863
-------AGAAGAUCAUGAUGCAUCA-AGCAGCUGGCAUUUUUCCAGCAGAAGAUUUCCCCCAGCGGAGAAAAUCCAGCGAGUUCAAGUAUCUUUUUCC-
-------((((((((.((((((....-.)))(((((..(((((((.((...............)))))))))..)))))....))).).)))))))...- ( -23.96, z-score =  -2.33, R)
>droEre2.scaffold_4690 4026021 91 + 18748788
-------AGAAGAUCAUGAUGCAUCA-AACAGCUGGCAUUUUUCCAGCCGAAGAUUUCCCCCAGCGAAGAAAAUCCAGCGAGUUCAAGUAUCUUUUUCC-
-------.(((((....(((((....-(((.(((((.((((((...((.(...........).))...)))))))))))..)))...))))).))))).- ( -20.20, z-score =  -1.95, R)
>droAna3.scaffold_13335 2098357 78 + 3335858
-------AACAGAUCAUGAGCCAUCAUGGCAGCUGG------UCCGGUCCGGG-------CCAGCCAGACUCUUCCCACAUUUUC-UUCACAUUCUUCC-
-------...(((..(((.(((.....))).(((((------((((...))))-------))))).............)))..))-)............- ( -23.60, z-score =  -2.54, R)
>consensus
_______AAAAGAUCAUGAUGCAUCA_AACAGCUGGCAUUUUUCCAGCUGAAGAUUUCCCCCAGCGAAGAAAAUCCAGCGGGUUCAAGCAUCUUUUUCC_
.................(((((.....(((.(((((.((((((...((...............))...)))))))))))..)))...)))))........ (-12.13 = -13.49 +   1.36)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:36:37 2011