Locus 11021

Sequence ID dm3.chr3R
Location 18,119,861 – 18,119,972
Length 111
Max. P 0.519361
window15142 window15143

overview

Window 2

Location 18,119,861 – 18,119,972
Length 111
Sequences 7
Columns 111
Reading direction forward
Mean pairwise identity 76.74
Shannon entropy 0.45422
G+C content 0.55200
Mean single sequence MFE -39.23
Consensus MFE -18.55
Energy contribution -22.41
Covariance contribution 3.86
Combinations/Pair 1.26
Mean z-score -1.65
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.519361
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18119861 111 + 27905053
UGCCACUCAACCGGAAUCUGGUAAUGCUGCGCAAUCAUCUGCGCAAGAAUACGGGCGGUAGCAUUACCGGAAAUGGCGGCGUAGGAGCUUCCGGUGUUGGAGCACAGCUGC
(((..(...((((((.(((((((((((((((((......)))((..(....)..)).))))))))))))))......(((......)))))))))...)..)))....... ( -44.70, z-score =  -2.16, R)
>droAna3.scaffold_13340 9104064 99 + 23697760
UGCCUCUUAAUCGCAACCUGGUGAUGCUACGUAACCACCUGCGGAAAAACACAGGC------------GGAGGAAGUGGCGGAGCGACCGGGGGCGUGGGAAUGCAGCUGC
(((.(((((..(((..(((((((.((((((....((.((((.(......).)))).------------)).....))))))...).)))))).))))))))..)))..... ( -35.90, z-score =  -0.86, R)
>droEre2.scaffold_4820 510458 108 - 10470090
UGCCACUGAACCGGAAUCUGGUAAUGCUGCGCAAUCAUCUGCGCAAGAAUACGGGC---AGCAUUACCGGAAAUGGCGGCGUAGCAGCUUCCGGUGUUGGAGCACAGCUGC
(((..(...((((((.((((((((((((((.(.....(((.....)))....).))---))))))))))))...(((.((...)).)))))))))...)..)))....... ( -44.20, z-score =  -2.25, R)
>droYak2.chr3R 18963585 111 + 28832112
UGCCACUGAACCGGAAUCUGGUAAUGCUGCGCAAUCAUCUGCGCAAGAAUACGGGCGGUAGCAUUACCGGAAAUGGCGGCGUAGGAGCUUCCGGUGUUGGAGCACAACUGC
(((..(...((((((.(((((((((((((((((......)))((..(....)..)).))))))))))))))......(((......)))))))))...)..)))....... ( -44.70, z-score =  -2.58, R)
>droSec1.super_0 18477394 111 + 21120651
UGCCACUCAACCGGAAUCUGGUAAUGCUACGCAAUCACCUGCGCAAGAAUACGGGCGGUAGCAUUACCGGAAAUGGCGGCGUAGGAGCUUCCGGUGUUGGAGCACAGCUGC
(((..(...((((((.(((((((((((((((((......)))((..(....)..)).))))))))))))))......(((......)))))))))...)..)))....... ( -44.70, z-score =  -2.46, R)
>droSim1.chr3R 17927237 111 + 27517382
UGCCACUCAACCGGAAUCUGGUAAUGCUACGCAAUCAUCUGCGCAAGAAUACGGGCGGUAGCAUUACCGGAAAUGGCGGCGUAGGAGCUUCCGGUGUUGGAGCACAGCUGC
(((..(...((((((.(((((((((((((((((......)))((..(....)..)).))))))))))))))......(((......)))))))))...)..)))....... ( -44.70, z-score =  -2.65, R)
>droWil1.scaffold_181130 12260812 93 + 16660200
UGCCCCUUAAUCGAAAUCUGGUCAUGCUGCGAAAUCAUUUGCGCAAGAAUACAAGC------------AACAACAAUGCUGGA-----CAAGGACAU-ACAGCGCAAUUGU
(((...............((.((.(((.(((((....)))))))).))...))...------------.........((((..-----.........-.)))))))..... ( -15.70, z-score =   1.40, R)
>consensus
UGCCACUCAACCGGAAUCUGGUAAUGCUGCGCAAUCAUCUGCGCAAGAAUACGGGCGGUAGCAUUACCGGAAAUGGCGGCGUAGGAGCUUCCGGUGUUGGAGCACAGCUGC
(((..(...((((((.((((((((((((..(((......)))((..(....)..))...))))))))))))......(((......)))))))))...)..)))....... (-18.55 = -22.41 +   3.86)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,119,861 – 18,119,972
Length 111
Sequences 7
Columns 111
Reading direction reverse
Mean pairwise identity 76.74
Shannon entropy 0.45422
G+C content 0.55200
Mean single sequence MFE -35.63
Consensus MFE -17.91
Energy contribution -18.53
Covariance contribution 0.62
Combinations/Pair 1.38
Mean z-score -1.50
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3R 18119861 111 - 27905053
GCAGCUGUGCUCCAACACCGGAAGCUCCUACGCCGCCAUUUCCGGUAAUGCUACCGCCCGUAUUCUUGCGCAGAUGAUUGCGCAGCAUUACCAGAUUCCGGUUGAGUGGCA
...(((..((((....(((((((((......)).......((.(((((((((((.....)))....(((((((....))))))))))))))).))))))))).))))))). ( -38.60, z-score =  -1.84, R)
>droAna3.scaffold_13340 9104064 99 - 23697760
GCAGCUGCAUUCCCACGCCCCCGGUCGCUCCGCCACUUCCUCC------------GCCUGUGUUUUUCCGCAGGUGGUUACGUAGCAUCACCAGGUUGCGAUUAAGAGGCA
((....))........((((..((((((.((((.((.....((------------(((((((......)))))))))....)).)).......))..))))))..).))). ( -31.71, z-score =  -1.29, R)
>droEre2.scaffold_4820 510458 108 + 10470090
GCAGCUGUGCUCCAACACCGGAAGCUGCUACGCCGCCAUUUCCGGUAAUGCU---GCCCGUAUUCUUGCGCAGAUGAUUGCGCAGCAUUACCAGAUUCCGGUUCAGUGGCA
((((((....(((......)))))))))...(((((.....(((((((((((---((..(((....)))((((....))))))))))))))).(....)))....))))). ( -44.10, z-score =  -3.10, R)
>droYak2.chr3R 18963585 111 - 28832112
GCAGUUGUGCUCCAACACCGGAAGCUCCUACGCCGCCAUUUCCGGUAAUGCUACCGCCCGUAUUCUUGCGCAGAUGAUUGCGCAGCAUUACCAGAUUCCGGUUCAGUGGCA
((.((((.....))))(((((((((......)).......((.(((((((((((.....)))....(((((((....))))))))))))))).)))))))))......)). ( -36.60, z-score =  -1.74, R)
>droSec1.super_0 18477394 111 - 21120651
GCAGCUGUGCUCCAACACCGGAAGCUCCUACGCCGCCAUUUCCGGUAAUGCUACCGCCCGUAUUCUUGCGCAGGUGAUUGCGUAGCAUUACCAGAUUCCGGUUGAGUGGCA
...(((..((((....(((((((((......)).......((.(((((((((((((((((((....))))..)))).....))))))))))).))))))))).))))))). ( -41.50, z-score =  -2.37, R)
>droSim1.chr3R 17927237 111 - 27517382
GCAGCUGUGCUCCAACACCGGAAGCUCCUACGCCGCCAUUUCCGGUAAUGCUACCGCCCGUAUUCUUGCGCAGAUGAUUGCGUAGCAUUACCAGAUUCCGGUUGAGUGGCA
...(((..((((....(((((((((......)).......((.(((((((((((.....(((....)))((((....))))))))))))))).))))))))).))))))). ( -39.50, z-score =  -2.34, R)
>droWil1.scaffold_181130 12260812 93 - 16660200
ACAAUUGCGCUGU-AUGUCCUUG-----UCCAGCAUUGUUGUU------------GCUUGUAUUCUUGCGCAAAUGAUUUCGCAGCAUGACCAGAUUUCGAUUAAGGGGCA
.....((((((((-..(((.(((-----(.(((((....))))------------)...(((....)))))))..)))...)))))....((...((......)).))))) ( -17.40, z-score =   2.18, R)
>consensus
GCAGCUGUGCUCCAACACCGGAAGCUCCUACGCCGCCAUUUCCGGUAAUGCUACCGCCCGUAUUCUUGCGCAGAUGAUUGCGCAGCAUUACCAGAUUCCGGUUGAGUGGCA
........((..(...(((((((...................(((((....)))))...(((...((((((((....))))))))...)))....)))))))...)..)). (-17.91 = -18.53 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:34:52 2011