Locus 14132

Sequence ID dm3.chrX
Location 11,386,995 – 11,387,210
Length 215
Max. P 0.944600
window19444 window19445 window19446 window19447

overview

Window 4

Location 11,386,995 – 11,387,115
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 65.53
Shannon entropy 0.59116
G+C content 0.40252
Mean single sequence MFE -23.62
Consensus MFE -12.24
Energy contribution -12.08
Covariance contribution -0.16
Combinations/Pair 1.37
Mean z-score -0.78
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.549327
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11386995 120 + 22422827
CUGCCUUUUCUCAGCUUAAAUUAUAAACAAAACUGCACUGUUAUAAACCUAGUGCUGUUAACAGACUUUCGGUAUUUUCUGGUAUUUUUCACAGUGCCUAGCGUUAAACGUCCGGCAACA
.((((.............................(((((((.....(((.(((((((............)))))))....))).......)))))))...(((.....)))..))))... ( -23.70, z-score =  -0.78, R)
>droEre2.scaffold_4690 14978836 119 - 18748788
CUACUUUUUCUCGGUUUGGAUUGAAAAUAAAACUGUACUGUUACCAGCC-AAUGCUGUUAACUGACUUUUGGUAUUUUCUGGUAUAUUCCAAAGUGCCAAUCGUCAAGCGGCUGGCAACA
...........((((((............))))))....(((.((((((-...(((......((((..(((((((((..(((......))))))))))))..))))))))))))).))). ( -33.80, z-score =  -3.00, R)
>droYak2.chrX 11001463 119 - 21770863
CUAAUUUUUAUCAACUUAGAUAAAUAAUAAACCUGUACUGUUACGAAUC-AGUGCUGUUAACUGGCUUUCGGUAUUUUCCAGUAUAUUCCAAAGUCCCAAGCGUCAUACGGCUGGUCACA
......((((((......)))))).....(((..((((((........)-))))).)))....((((((.((................))))))))(((.((........)))))..... ( -19.89, z-score =   0.02, R)
>droSec1.super_36 108831 96 + 449511
-----------------------CUGCCUUUGCUCAGCUAACAU-AACCUAAUGCUGUUAACAGACUUUCGGUAUUUUCUGGUAUUUUUCGCAGUGCCUAGCGUUAAACGCAGGACAACA
-----------------------((((.((((....((((....-.(((.((..(((....)))...)).))).......((((((......))))))))))..)))).))))....... ( -20.40, z-score =  -0.18, R)
>droSim1.chrX 8789040 96 + 17042790
-----------------------CUGCCUUUUCUCAGCUAACAU-AACCUAAUGCUGUUAACAGACUUUCGGUAUUUUCUGGUAUUUUUCGCAGUGCCUAGCGUUAAGCGCGGGACAACA
-----------------------(((((((......((((....-.(((.((..(((....)))...)).))).......((((((......))))))))))...))).))))....... ( -20.30, z-score =   0.04, R)
>consensus
CU___UUUU_UC___UU__AU__AUAACAAAACUGAACUGUUAU_AACCUAAUGCUGUUAACAGACUUUCGGUAUUUUCUGGUAUUUUUCACAGUGCCUAGCGUUAAACGCCGGGCAACA
..............................................(((.(((((((............)))))))....)))..........((((((.(((.....))).)))).)). (-12.24 = -12.08 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 5

Location 11,387,035 – 11,387,155
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.57
Shannon entropy 0.32007
G+C content 0.47289
Mean single sequence MFE -36.48
Consensus MFE -24.84
Energy contribution -26.04
Covariance contribution 1.20
Combinations/Pair 1.19
Mean z-score -2.27
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.50
SVM RNA-class probability 0.944600
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11387035 120 + 22422827
UUAUAAACCUAGUGCUGUUAACAGACUUUCGGUAUUUUCUGGUAUUUUUCACAGUGCCUAGCGUUAAACGUCCGGCAACAGAGUGACCAGAGACACUGGCAAGAAAUACCAGGCCCCAGC
......(((.(((.(((....))))))...)))....(((((((((((((((..((((..(((.....)))..)))).....))))((((.....))))...)))))))))))....... ( -34.80, z-score =  -2.26, R)
>droEre2.scaffold_4690 14978876 119 - 18748788
UUACCAGCC-AAUGCUGUUAACUGACUUUUGGUAUUUUCUGGUAUAUUCCAAAGUGCCAAUCGUCAAGCGGCUGGCAACAGCGUGACCAGAGGCGCCGUCAAGAAAUACCAGGCAAGAGC
......(((-....(((...((((((..(((((((((..(((......))))))))))))..))))....((((....))))))...))).)))(((....(....)....)))...... ( -37.50, z-score =  -1.82, R)
>droYak2.chrX 11001503 119 - 21770863
UUACGAAUC-AGUGCUGUUAACUGGCUUUCGGUAUUUUCCAGUAUAUUCCAAAGUCCCAAGCGUCAUACGGCUGGUCACAGCGUGACCAGAGGCACUUUCAAAAAAUACCAGGCAAGAGC
.........-...(((.((..((((.....((......))..........(((((.((...((.....)).((((((((...)))))))).)).))))).........))))..)).))) ( -29.60, z-score =  -0.94, R)
>droSec1.super_36 108852 115 + 449511
-----AACCUAAUGCUGUUAACAGACUUUCGGUAUUUUCUGGUAUUUUUCGCAGUGCCUAGCGUUAAACGCAGGACAACAGAGUGACCAGAGGCACUGGCAAGAAAUACCAGGCCUCAGC
-----.(((.((..(((....)))...)).)))....((((((((((((.(((((((((.(((.....))).((.((......)).))..))))))).)).))))))))))))....... ( -39.80, z-score =  -3.38, R)
>droSim1.chrX 8789061 115 + 17042790
-----AACCUAAUGCUGUUAACAGACUUUCGGUAUUUUCUGGUAUUUUUCGCAGUGCCUAGCGUUAAGCGCGGGACAACAGAGUGACCAGAGGCACUGGCAAGAAAUACCAGGCCUCAGC
-----.(((.((..(((....)))...)).)))....((((((((((((.(((((((((.(((.....)))((.((......))..))..))))))).)).))))))))))))....... ( -40.70, z-score =  -2.96, R)
>consensus
UUA__AACCUAAUGCUGUUAACAGACUUUCGGUAUUUUCUGGUAUUUUUCACAGUGCCUAGCGUUAAACGCCGGGCAACAGAGUGACCAGAGGCACUGGCAAGAAAUACCAGGCCACAGC
..........(((((((............))))))).((((((((((((..((((((((...((((..(...........)..))))...))))))))...))))))))))))....... (-24.84 = -26.04 +   1.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 11,387,035 – 11,387,155
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.57
Shannon entropy 0.32007
G+C content 0.47289
Mean single sequence MFE -37.40
Consensus MFE -25.58
Energy contribution -25.50
Covariance contribution -0.08
Combinations/Pair 1.30
Mean z-score -2.15
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.29
SVM RNA-class probability 0.922111
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11387035 120 - 22422827
GCUGGGGCCUGGUAUUUCUUGCCAGUGUCUCUGGUCACUCUGUUGCCGGACGUUUAACGCUAGGCACUGUGAAAAAUACCAGAAAAUACCGAAAGUCUGUUAACAGCACUAGGUUUAUAA
((((....(((((((((.(..(.((((((((((((.((...)).))))))((.....))...)))))))..).)))))))))..((((.(....)..))))..))))............. ( -36.40, z-score =  -1.59, R)
>droEre2.scaffold_4690 14978876 119 + 18748788
GCUCUUGCCUGGUAUUUCUUGACGGCGCCUCUGGUCACGCUGUUGCCAGCCGCUUGACGAUUGGCACUUUGGAAUAUACCAGAAAAUACCAAAAGUCAGUUAACAGCAUU-GGCUGGUAA
((....))(((((((((((....((.(((..(.((((.((.((.....)).)).)))).)..))).))..)))).)))))))....(((((...((((((.......)))-)))))))). ( -36.40, z-score =  -1.13, R)
>droYak2.chrX 11001503 119 + 21770863
GCUCUUGCCUGGUAUUUUUUGAAAGUGCCUCUGGUCACGCUGUGACCAGCCGUAUGACGCUUGGGACUUUGGAAUAUACUGGAAAAUACCGAAAGCCAGUUAACAGCACU-GAUUCGUAA
(((.(((.(((((....(((.(((((.((.((((((((...)))))))).((.....))...)).))))).))).....(((......)))...))))).))).)))...-......... ( -33.50, z-score =  -1.40, R)
>droSec1.super_36 108852 115 - 449511
GCUGAGGCCUGGUAUUUCUUGCCAGUGCCUCUGGUCACUCUGUUGUCCUGCGUUUAACGCUAGGCACUGCGAAAAAUACCAGAAAAUACCGAAAGUCUGUUAACAGCAUUAGGUU-----
((((....(((((((((.((((.(((((((..((.((......)).)).(((.....))).))))))))))).)))))))))..((((.(....)..))))..))))........----- ( -40.80, z-score =  -3.57, R)
>droSim1.chrX 8789061 115 - 17042790
GCUGAGGCCUGGUAUUUCUUGCCAGUGCCUCUGGUCACUCUGUUGUCCCGCGCUUAACGCUAGGCACUGCGAAAAAUACCAGAAAAUACCGAAAGUCUGUUAACAGCAUUAGGUU-----
((((....(((((((((.((((.(((((((..((.((......)).)).(((.....))).))))))))))).)))))))))..((((.(....)..))))..))))........----- ( -39.90, z-score =  -3.08, R)
>consensus
GCUGAGGCCUGGUAUUUCUUGCCAGUGCCUCUGGUCACUCUGUUGCCAGCCGUUUAACGCUAGGCACUGUGAAAAAUACCAGAAAAUACCGAAAGUCUGUUAACAGCAUUAGGUU__UAA
((((....(((((((((.((((.((((((.(((((.((...)).))))).((.....))...)))))))))).))))))))).......(....)........))))............. (-25.58 = -25.50 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 11,387,090 – 11,387,210
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.92
Shannon entropy 0.21067
G+C content 0.49333
Mean single sequence MFE -37.15
Consensus MFE -25.88
Energy contribution -27.44
Covariance contribution 1.56
Combinations/Pair 1.21
Mean z-score -2.20
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.60
SVM RNA-class probability 0.757238
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11387090 120 - 22422827
UUUCAAUUACUCGCGUUCGCUUAAAGUGAACGCACACCAUGAAAAUAACUCUGCUGCUGGGGCCUGGUAUUUCUUGCCAGUGUCUCUGGUCACUCUGUUGCCGGACGUUUAACGCUAGGC
(((((.......((((((((.....))))))))......)))))..(((...(..((..((((((((((.....)))))).))).)..))..)...)))(((((.((.....)))).))) ( -36.12, z-score =  -1.79, R)
>droEre2.scaffold_4690 14978930 120 + 18748788
UUUCAAUUACUCGCGUUCGCGUAAAGUGAACGCACACCAUGAAAAUAACUCUGUUGCUCUUGCCUGGUAUUUCUUGACGGCGCCUCUGGUCACGCUGUUGCCAGCCGCUUGACGAUUGGC
(((((.......((((((((.....))))))))......))))).....((.((((.((..(((((((.......(((((((..........))))))))))))..))..)))))).)). ( -32.63, z-score =  -0.39, R)
>droYak2.chrX 11001557 120 + 21770863
UUUCAAUUACUCGCGUUCGCGUAAAGUGAACGCACACCAUGAAAAUAACUCUGUUGCUCUUGCCUGGUAUUUUUUGAAAGUGCCUCUGGUCACGCUGUGACCAGCCGUAUGACGCUUGGG
(((((.......((((((((.....))))))))......)))))....(((....((((.(((..(((((((.....))))))).((((((((...))))))))..))).)).))..))) ( -36.72, z-score =  -2.35, R)
>droSec1.super_36 108902 120 - 449511
UUUCAAUUACUCGCGUUCGCUUAAAGUGAACGCACACCACGAAAAUAAAUCUGCUGCUGAGGCCUGGUAUUUCUUGCCAGUGCCUCUGGUCACUCUGUUGUCCUGCGUUUAACGCUAGGC
...((((.....((((((((.....))))))))..((((.((.......)).......(((((((((((.....)))))).)))))))))......)))).((((((.....))).))). ( -39.60, z-score =  -3.49, R)
>droSim1.chrX 8789111 120 - 17042790
UUUCAAUUACUCGCGUUCGCGUAAAGUGAACGCACACCACGAAAAUAACUUUGCUGCUGAGGCCUGGUAUUUCUUGCCAGUGCCUCUGGUCACUCUGUUGUCCCGCGCUUAACGCUAGGC
............((((((((.....))))))))...((......(((((...(..((((((((((((((.....)))))).))))).)))..)...)))))...(((.....)))..)). ( -40.70, z-score =  -2.99, R)
>consensus
UUUCAAUUACUCGCGUUCGCGUAAAGUGAACGCACACCAUGAAAAUAACUCUGCUGCUGAGGCCUGGUAUUUCUUGCCAGUGCCUCUGGUCACUCUGUUGCCAGCCGUUUAACGCUAGGC
............((((((((.....))))))))...((.................((((((((((((((.....)))))).))))).)))...((((....))))............)). (-25.88 = -27.44 +   1.56)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:34:21 2011