Locus 1618

Sequence ID dm3.chr2L
Location 12,543,950 – 12,544,052
Length 102
Max. P 0.964908
window2215 window2216

overview

Window 5

Location 12,543,950 – 12,544,052
Length 102
Sequences 7
Columns 104
Reading direction forward
Mean pairwise identity 73.17
Shannon entropy 0.54235
G+C content 0.39904
Mean single sequence MFE -26.49
Consensus MFE -12.05
Energy contribution -12.00
Covariance contribution -0.05
Combinations/Pair 1.50
Mean z-score -2.11
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.74
SVM RNA-class probability 0.964908
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 12543950 102 + 23011544
CUUUUCUUCGCUCUUUUCCUUUCCGCAAGGAAAUGAUUCACAAUGCAAAAAAAA-UGGCAAGGG-AAAAGGAAAAGAAAAACGAAGGCGUUGUAGGAGGAAGUA
.((((((((..(((((((((((((....))).....(((.(..(((........-..)))..))-))))))))))))..((((....))))...)))))))).. ( -28.60, z-score =  -2.26, R)
>droSim1.chr2L 12353032 103 + 22036055
CUUUUCUUCGCUCUUUUCCUUUCCGCAAGGAAAUGAUUCACAAUGCAAAAAAAAAUGGCAAGGG-AAAAGGAAAAGAAAAACGAAGGCGUUGUAGGAGGAAGUA
.((((((((..(((((((((((((....))).....(((.(..(((...........)))..))-))))))))))))..((((....))))...)))))))).. ( -28.50, z-score =  -2.26, R)
>droSec1.super_16 734047 101 + 1878335
CUUUUCUUCACUCUUUUCCUUUCCGCAAGGAAAUGAUUCACAAUGCAAAAAAA--UGGCAAGGG-AAAAGGAAAAGAAAAACGAAGGCGUUGUAGGAGGAAGUA
.((((((((..(((((((((((((....))).....(((.(..(((.......--..)))..))-))))))))))))..((((....))))...)))))))).. ( -28.70, z-score =  -2.64, R)
>droYak2.chr2L 8983519 96 + 22324452
---CUUUUCUCUCUUUUCCUUUUCGCAAGGAAAUGAUUCACAAUGCAAAAA----UGGCAAGGG-AAAAGGAAAAGAAAAACGAAGGCGUUGUAGGAGGAAGUA
---.((((((((((((((((((((.(...(((....)))....(((.....----..))).).)-))))))))))))..((((....))))....))))))).. ( -28.10, z-score =  -2.86, R)
>droEre2.scaffold_4929 13766691 101 - 26641161
CUUUUUCUCUCUCUUUUCCUUUCCGCAAGGAAAUGAUUCACAAUGCAAAAAAA--UGGCAAGGG-AAAAGGAAAAGAAAAACGAAGGCGUUAUAGGAGGAAGUA
..((((((((.(((((((((((((....))).....(((.(..(((.......--..)))..))-))))))))))))..((((....))))...)))))))).. ( -28.50, z-score =  -2.60, R)
>droAna3.scaffold_12916 3326880 97 - 16180835
-----AUAGCCCCAUCUCACUUCCACAAGGAAGUGAUUCACAAUGCAGAAGAG--UGUAAAGUGUAAAGGGAAAAGAAAAACGGAGGCGUUGUAGGAGGAAGCA
-----...(((((...((((((((....))))))))..(((..((((......--))))..)))..................)).)))(((.........))). ( -23.80, z-score =  -1.70, R)
>droGri2.scaffold_15074 5541407 83 - 7742996
--AUUGCCGUUGUUCUUGUUGUUGUUGAAACCAUGAAUCAUGCUGCGAAAGC------------------GAUAACUAAAUUGGCCUAUUUGGCGAAGCAAGG-
--............((((((((((((.....((((...))))..((....))------------------)))))).......(((.....)))..)))))).- ( -19.20, z-score =  -0.49, R)
>consensus
CUUUUCUUCUCUCUUUUCCUUUCCGCAAGGAAAUGAUUCACAAUGCAAAAAAA__UGGCAAGGG_AAAAGGAAAAGAAAAACGAAGGCGUUGUAGGAGGAAGUA
..............((((((((((....)))))...((((((((((........................................))))))).)))))))).. (-12.05 = -12.00 +  -0.05)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 12,543,950 – 12,544,052
Length 102
Sequences 7
Columns 104
Reading direction reverse
Mean pairwise identity 73.17
Shannon entropy 0.54235
G+C content 0.39904
Mean single sequence MFE -21.24
Consensus MFE -9.16
Energy contribution -9.72
Covariance contribution 0.56
Combinations/Pair 1.50
Mean z-score -1.96
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.17
SVM RNA-class probability 0.904410
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 12543950 102 - 23011544
UACUUCCUCCUACAACGCCUUCGUUUUUCUUUUCCUUUU-CCCUUGCCA-UUUUUUUUGCAUUGUGAAUCAUUUCCUUGCGGAAAGGAAAAGAGCGAAGAAAAG
..................((((((...((((((((((((-(...(((.(-......).)))..(..(.........)..))))))))))))))))))))..... ( -23.70, z-score =  -2.43, R)
>droSim1.chr2L 12353032 103 - 22036055
UACUUCCUCCUACAACGCCUUCGUUUUUCUUUUCCUUUU-CCCUUGCCAUUUUUUUUUGCAUUGUGAAUCAUUUCCUUGCGGAAAGGAAAAGAGCGAAGAAAAG
..................((((((...((((((((((((-(.................(((..(.(((....)))).))))))))))))))))))))))..... ( -23.42, z-score =  -2.25, R)
>droSec1.super_16 734047 101 - 1878335
UACUUCCUCCUACAACGCCUUCGUUUUUCUUUUCCUUUU-CCCUUGCCA--UUUUUUUGCAUUGUGAAUCAUUUCCUUGCGGAAAGGAAAAGAGUGAAGAAAAG
..................(((((...(((((((((((((-(........--.......(((..(.(((....)))).))))))))))))))))))))))..... ( -20.66, z-score =  -1.51, R)
>droYak2.chr2L 8983519 96 - 22324452
UACUUCCUCCUACAACGCCUUCGUUUUUCUUUUCCUUUU-CCCUUGCCA----UUUUUGCAUUGUGAAUCAUUUCCUUGCGAAAAGGAAAAGAGAGAAAAG---
.......................((((((((((((((((-(...(((..----.....)))..(..(.........)..))))))))))))))))))....--- ( -21.30, z-score =  -2.77, R)
>droEre2.scaffold_4929 13766691 101 + 26641161
UACUUCCUCCUAUAACGCCUUCGUUUUUCUUUUCCUUUU-CCCUUGCCA--UUUUUUUGCAUUGUGAAUCAUUUCCUUGCGGAAAGGAAAAGAGAGAGAAAAAG
.......................(((((((((..(((((-((.......--..((((((((..(.(((....)))).)))))))))))))))..))))))))). ( -23.50, z-score =  -2.31, R)
>droAna3.scaffold_12916 3326880 97 + 16180835
UGCUUCCUCCUACAACGCCUCCGUUUUUCUUUUCCCUUUACACUUUACA--CUCUUCUGCAUUGUGAAUCACUUCCUUGUGGAAGUGAGAUGGGGCUAU-----
................(((.(((((...............(((..(.((--......)).)..)))..((((((((....))))))))))))))))...----- ( -24.40, z-score =  -3.16, R)
>droGri2.scaffold_15074 5541407 83 + 7742996
-CCUUGCUUCGCCAAAUAGGCCAAUUUAGUUAUC------------------GCUUUCGCAGCAUGAUUCAUGGUUUCAACAACAACAAGAACAACGGCAAU--
-.........(((......((((....((((((.------------------(((.....)))))))))..))))(((...........)))....)))...-- ( -11.70, z-score =   0.70, R)
>consensus
UACUUCCUCCUACAACGCCUUCGUUUUUCUUUUCCUUUU_CCCUUGCCA__UUUUUUUGCAUUGUGAAUCAUUUCCUUGCGGAAAGGAAAAGAGAGAAGAAAAG
..........................(((((((((((..................((((((....(((....)))..))))))))))))))))).......... ( -9.16 =  -9.72 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:35:27 2011