Locus 13771

Sequence ID dm3.chrX
Location 9,048,977 – 9,049,066
Length 89
Max. P 0.994677
window18946 window18947

overview

Window 6

Location 9,048,977 – 9,049,066
Length 89
Sequences 7
Columns 94
Reading direction forward
Mean pairwise identity 71.32
Shannon entropy 0.53771
G+C content 0.60588
Mean single sequence MFE -35.54
Consensus MFE -15.52
Energy contribution -15.64
Covariance contribution 0.13
Combinations/Pair 1.38
Mean z-score -2.20
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.69
SVM RNA-class probability 0.960843
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 9048977 89 + 22422827
UAUCGCUGGGAGCCAAAGUUUGGACCGAUGCACAGCGCCGAAGCGCUGGCGGCCAACUGACGAGGAACUUUGGUUCGUGGUCAUAACGA-----
(((.((((.((((((((((((((.(((.....((((((....)))))).)))))..((....)))))))))))))).)))).)))....----- ( -37.80, z-score =  -3.06, R)
>droEre2.scaffold_4690 12679740 89 - 18748788
UAUGGCGGGGAGCCAAAAUUAGGACCGAUGCACAGCGCCGAAGCGCUGGCGGCCAACUGACGAGGAACUUUGGUUUGGGGUCACAACGA-----
..((((.....)))).......((((..(((.((((((....))))))))).(((((..(.(.....).)..).)))))))).......----- ( -30.50, z-score =  -1.34, R)
>droYak2.chrX 9502769 89 - 21770863
UGUGGCGGGGAGCCAAAGUUAGGACCGAUGCACAGCGCCGAAGCGCUGGCGGCCAACUGACAAGGAACUUUGGUUCGUGGUUACAACGA-----
((((((.(.(((((((((((.((.(((.....((((((....)))))).)))))..((....)).))))))))))).).))))))....----- ( -41.70, z-score =  -4.14, R)
>droSec1.super_34 407812 89 + 457129
UAUGGCGGGGAGCCAAAGUUUGGACCGAUGCACAGCGCCGAAGCGCUGGCGGCCAACUGACGAGGAACUUUGGUUCGUCGUCACAACGA-----
..((((((.((((((((((((((.(((.....((((((....)))))).)))))..((....)))))))))))))).))))))......----- ( -42.80, z-score =  -4.22, R)
>dp4.chrXL_group1e 5591993 91 - 12523060
UAGAGCCCAGAGCCCAAAC---GGGCGAUGCUCAGCGCCGGAGCACUGGCAGCCAACUGUGGCCGAUGAGUCCGCUGUGGCCCAGAGGAAACCC
..((((.....((((....---))))...)))).(((((((....))))).))...(((.(((((...((....)).)))))))).(....).. ( -35.40, z-score =  -1.12, R)
>droPer1.super_25 1179967 91 - 1448063
UAGAGCCCAGAGCCCAAAC---GGGCGAUGCUCAGCGCCGGAGCACUGGCAGCCAACUGUGGCCGAUGAGUCCGCUGUGGCCCAGAGGAAACCC
..((((.....((((....---))))...)))).(((((((....))))).))...(((.(((((...((....)).)))))))).(....).. ( -35.40, z-score =  -1.12, R)
>droAna3.scaffold_13047 1387504 82 - 1816235
-------GGAAGCCAAAGUUAAGACCGAUGUGCAGCGCCGAAGCGCUGCCGGCCAACUGACGAAGCAUAGCGGCUUGGAGCCAAAACGA-----
-------((...((...((((.(.(((....(((((((....)))))))))).)...)))).((((......))))))..)).......----- ( -25.20, z-score =  -0.42, R)
>consensus
UAUGGCGGGGAGCCAAAGUUAGGACCGAUGCACAGCGCCGAAGCGCUGGCGGCCAACUGACGAGGAACUUUGGUUUGUGGUCAAAACGA_____
.............................((.((((((....))))))))(((((.....(((......))).....)))))............ (-15.52 = -15.64 +   0.13)

alignment

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secondary structure

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dotplot

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Window 7

Location 9,048,977 – 9,049,066
Length 89
Sequences 7
Columns 94
Reading direction reverse
Mean pairwise identity 71.32
Shannon entropy 0.53771
G+C content 0.60588
Mean single sequence MFE -34.70
Consensus MFE -18.94
Energy contribution -19.03
Covariance contribution 0.09
Combinations/Pair 1.31
Mean z-score -2.31
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.72
SVM RNA-class probability 0.994677
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 9048977 89 - 22422827
-----UCGUUAUGACCACGAACCAAAGUUCCUCGUCAGUUGGCCGCCAGCGCUUCGGCGCUGUGCAUCGGUCCAAACUUUGGCUCCCAGCGAUA
-----(((((.((((...((((....))))...))))(..((((((((((((....)))))).))...(((....)))..))))..)))))).. ( -33.60, z-score =  -3.02, R)
>droEre2.scaffold_4690 12679740 89 + 18748788
-----UCGUUGUGACCCCAAACCAAAGUUCCUCGUCAGUUGGCCGCCAGCGCUUCGGCGCUGUGCAUCGGUCCUAAUUUUGGCUCCCCGCCAUA
-----..((((.((((((((......(.....).....))))..((((((((....)))))).))...)))).))))..((((.....)))).. ( -30.20, z-score =  -2.88, R)
>droYak2.chrX 9502769 89 + 21770863
-----UCGUUGUAACCACGAACCAAAGUUCCUUGUCAGUUGGCCGCCAGCGCUUCGGCGCUGUGCAUCGGUCCUAACUUUGGCUCCCCGCCACA
-----..((((..(((..((((....))))...(((....))).((((((((....)))))).))...)))..))))..((((.....)))).. ( -31.40, z-score =  -2.69, R)
>droSec1.super_34 407812 89 - 457129
-----UCGUUGUGACGACGAACCAAAGUUCCUCGUCAGUUGGCCGCCAGCGCUUCGGCGCUGUGCAUCGGUCCAAACUUUGGCUCCCCGCCAUA
-----......((((((.((((....)))).)))))).((((((((((((((....)))))).))...)).))))....((((.....)))).. ( -38.70, z-score =  -4.20, R)
>dp4.chrXL_group1e 5591993 91 + 12523060
GGGUUUCCUCUGGGCCACAGCGGACUCAUCGGCCACAGUUGGCUGCCAGUGCUCCGGCGCUGAGCAUCGCCC---GUUUGGGCUCUGGGCUCUA
((((..((...(((((..(((((.......(((((....)))))((((((((....)))))).)).....))---)))..))))).)))))).. ( -38.20, z-score =  -0.30, R)
>droPer1.super_25 1179967 91 + 1448063
GGGUUUCCUCUGGGCCACAGCGGACUCAUCGGCCACAGUUGGCUGCCAGUGCUCCGGCGCUGAGCAUCGCCC---GUUUGGGCUCUGGGCUCUA
((((..((...(((((..(((((.......(((((....)))))((((((((....)))))).)).....))---)))..))))).)))))).. ( -38.20, z-score =  -0.30, R)
>droAna3.scaffold_13047 1387504 82 + 1816235
-----UCGUUUUGGCUCCAAGCCGCUAUGCUUCGUCAGUUGGCCGGCAGCGCUUCGGCGCUGCACAUCGGUCUUAACUUUGGCUUCC-------
-----.(((..((((.....))))..)))....(((((..((((((((((((....)))))))....)))))......)))))....------- ( -32.60, z-score =  -2.75, R)
>consensus
_____UCGUUGUGACCACAAACCAAAGUUCCUCGUCAGUUGGCCGCCAGCGCUUCGGCGCUGUGCAUCGGUCCUAACUUUGGCUCCCCGCCAUA
........................................((((((((((((....)))))).))...)))).......((((.....)))).. (-18.94 = -19.03 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:27:30 2011