Locus 1143

Sequence ID dm3.chr2L
Location 8,591,919 – 8,592,028
Length 109
Max. P 0.919889
window1565 window1566

overview

Window 5

Location 8,591,919 – 8,592,028
Length 109
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 73.79
Shannon entropy 0.47782
G+C content 0.41656
Mean single sequence MFE -32.35
Consensus MFE -13.84
Energy contribution -15.62
Covariance contribution 1.78
Combinations/Pair 1.21
Mean z-score -2.33
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.27
SVM RNA-class probability 0.919889
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 8591919 109 + 23011544
UGCAGCCAUCAAAUUGAUGGAGAAAUCUAAAACGUUUCUUAGAAUUUAUAUGCCUGCAUAUAGACAUGUGCGUACGAGGACG--------AGUAUAUGCGAAACGCUGUUAGAGCUG
.((..(((((.....))))).....(((((..((((((......((((((((....))))))))(((((((...((....))--------.))))))).))))))...))))))).. ( -31.60, z-score =  -2.89, R)
>droEre2.scaffold_4929 9189093 117 + 26641161
UGCAGCCAUCAAAUUGAUAGACCCAUCUAAAACGUUUCUUAGAAUUUAUGUGCGUGCACAUAGACAUCUGUGUGUGUGUAUAUGGGAAAUGGGAAAUGGGAAAUGCUGUUAGAGCUG
.(((((..((.......((((....))))...(((((((((...((((((((((..(((((((....)))))))..))))))))))...))))))))).))...)))))........ ( -38.70, z-score =  -3.76, R)
>droYak2.chr2L 11240775 103 + 22324452
UGCAUCCAUCAAAUUGAUGGAGCCAUCUGAAACGUUUCUUAGAAUUUAUGUGCGUGCAUAUAGGCAUUUGUGUGCGAGUA--------------UAUGGGAAACGCUGCCAGAGCUG
.((.((((((.....))))))))..((((..((((((((.......(((((((.(((((((((....))))))))).)))--------------))))))))))).)..)))).... ( -33.71, z-score =  -2.41, R)
>droSec1.super_3 4078734 109 + 7220098
UGCAGCCAUCAAAUUGAUGGAGCGAUCUAAAACGUUUCUUAGAAUUUAUGUGCGUGCAUAUAGGCAUGUGUGUACGAGUACG--------AGUAUAUGCGAAACGCUGUUAGAGCUG
.....(((((.....)))))(((..(((((..((((((.((..(((..((..((((((((((....))))))))))..))..--------)))...)).))))))...)))))))). ( -33.80, z-score =  -2.09, R)
>droSim1.chr2L 8381152 109 + 22036055
UGCAGCCAUCAAAUUGAUGGAGCAAUCUAAAACGUUUCUUAGAAUUUAUGUGCGUGCAUAUAGGCAUGUGUGUACGAGUACG--------AGUAUAUGCGAAACGCUGUUAGAGCUC
(((..(((((.....))))).))).(((((..((((((.((..(((..((..((((((((((....))))))))))..))..--------)))...)).))))))...))))).... ( -34.00, z-score =  -2.40, R)
>droAna3.scaffold_12916 10237950 90 + 16180835
UGCUGGCAUUAAAUUGAUAAUGCAAUCUA------UACAAGGACAUCGUAU-----CAUCACGGGAUGUGUAUGUGUGGGCA----------------UGGAAUGCUUUCAGACCUC
..(((((((((......))))))...(((------((((.(.(((((.(..-----......).))))).).)))))))(((----------------(...))))...)))..... ( -22.30, z-score =  -0.43, R)
>consensus
UGCAGCCAUCAAAUUGAUGGAGCAAUCUAAAACGUUUCUUAGAAUUUAUGUGCGUGCAUAUAGGCAUGUGUGUACGAGUACG________AGUAUAUGCGAAACGCUGUUAGAGCUG
.((..(((((.....))))).....(((((..((((((.......(((((((....)))))))(((....)))..........................))))))...))))))).. (-13.84 = -15.62 +   1.78)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 8,591,919 – 8,592,028
Length 109
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 73.79
Shannon entropy 0.47782
G+C content 0.41656
Mean single sequence MFE -23.93
Consensus MFE -11.25
Energy contribution -12.28
Covariance contribution 1.03
Combinations/Pair 1.33
Mean z-score -1.71
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.688415
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 8591919 109 - 23011544
CAGCUCUAACAGCGUUUCGCAUAUACU--------CGUCCUCGUACGCACAUGUCUAUAUGCAGGCAUAUAAAUUCUAAGAAACGUUUUAGAUUUCUCCAUCAAUUUGAUGGCUGCA
(((((((((.((((((((((...(((.--------.......))).))..((((((......))))))...........)))))))))))))......((((.....)))))))).. ( -27.20, z-score =  -2.77, R)
>droEre2.scaffold_4929 9189093 117 - 26641161
CAGCUCUAACAGCAUUUCCCAUUUCCCAUUUCCCAUAUACACACACACAGAUGUCUAUGUGCACGCACAUAAAUUCUAAGAAACGUUUUAGAUGGGUCUAUCAAUUUGAUGGCUGCA
.........((((..................((((....................((((((....))))))...(((((((....)))))))))))..((((.....)))))))).. ( -21.50, z-score =  -0.74, R)
>droYak2.chr2L 11240775 103 - 22324452
CAGCUCUGGCAGCGUUUCCCAUA--------------UACUCGCACACAAAUGCCUAUAUGCACGCACAUAAAUUCUAAGAAACGUUUCAGAUGGCUCCAUCAAUUUGAUGGAUGCA
....(((((.((((((((.....--------------.....(((......)))...((((......))))........)))))))))))))..((((((((.....)))))).)). ( -27.10, z-score =  -2.24, R)
>droSec1.super_3 4078734 109 - 7220098
CAGCUCUAACAGCGUUUCGCAUAUACU--------CGUACUCGUACACACAUGCCUAUAUGCACGCACAUAAAUUCUAAGAAACGUUUUAGAUCGCUCCAUCAAUUUGAUGGCUGCA
..(.(((((.(((((((((((((((..--------(((............)))..))))))).......((.....)).))))))))))))).)((.(((((.....)))))..)). ( -26.70, z-score =  -2.75, R)
>droSim1.chr2L 8381152 109 - 22036055
GAGCUCUAACAGCGUUUCGCAUAUACU--------CGUACUCGUACACACAUGCCUAUAUGCACGCACAUAAAUUCUAAGAAACGUUUUAGAUUGCUCCAUCAAUUUGAUGGCUGCA
....(((((.(((((((((((((((..--------(((............)))..))))))).......((.....)).))))))))))))).(((.(((((.....)))))..))) ( -25.90, z-score =  -2.14, R)
>droAna3.scaffold_12916 10237950 90 - 16180835
GAGGUCUGAAAGCAUUCCA----------------UGCCCACACAUACACAUCCCGUGAUG-----AUACGAUGUCCUUGUA------UAGAUUGCAUUAUCAAUUUAAUGCCAGCA
..(((((....((((...)----------------))).....(((.(((.....))))))-----((((((.....)))))------))))))((((((......))))))..... ( -15.20, z-score =   0.39, R)
>consensus
CAGCUCUAACAGCGUUUCGCAUAUACU________CGUACUCGCACACACAUGCCUAUAUGCACGCACAUAAAUUCUAAGAAACGUUUUAGAUUGCUCCAUCAAUUUGAUGGCUGCA
..(((((((.((((((((........................(((......)))...((((......))))........))))))))))))).....(((((.....)))))..)). (-11.25 = -12.28 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:26:27 2011