Locus 1355

Sequence ID dm3.chr2L
Location 10,505,648 – 10,505,779
Length 131
Max. P 0.738261
window1848 window1849

overview

Window 8

Location 10,505,648 – 10,505,747
Length 99
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 71.37
Shannon entropy 0.52929
G+C content 0.47822
Mean single sequence MFE -26.88
Consensus MFE -16.09
Energy contribution -17.27
Covariance contribution 1.17
Combinations/Pair 1.31
Mean z-score -0.90
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.38
SVM RNA-class probability 0.667877
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10505648 99 - 23011544
GCGCCUUUGGGAAAACCACUUUUCCU---CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUAGCGAGCGGAAAAACUGGUUUGACCGUAGUUC------
....((.(((..((((((.((((..(---((..(((.(((((....(((((((....)))))))..))))).)))..))))))).))))))..))).))...------ ( -28.90, z-score =  -1.19, R)
>droAna3.scaffold_12916 14351270 102 - 16180835
-----UCUCGGAAAACCACUUCCCCACCAUGGAUUUCUGGUCUAGUUCAAGG-UUCUUUCCAGCUAGAUUGCCACCUGGGGGCGCCACACAGAAACUGGUUGCGGUUC
-----........((((...((((((...(((......(((((((((...((-......))))))))))).)))..)))))).((.((.(((...))))).)))))). ( -27.90, z-score =   0.41, R)
>droEre2.scaffold_4929 11719103 98 + 26641161
-AGCCUGCUGGAAAACCACUUUUCCA---CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUGGCGAGCGGAAAAACUGGUUCGCCUGUGGUUC------
-((((.((.((..(((((.((((((.---(..((((((.(......(((((((....))))))).).))))))..).))))))..)))))..)).)))))).------ ( -32.30, z-score =  -1.66, R)
>droYak2.chr2L 6913224 91 - 22324452
--------UGGAAAACCACUUUUCCA---CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUGCCGAGCGGAAAAACUGGUUCGCUUGUGCUUC------
--------(((((((....)))))))---..((((((.........(((((((....)))))))))))))((((((((((........)))))))).))...------ ( -26.60, z-score =  -1.37, R)
>droSec1.super_3 5932587 89 - 7220098
ACACCUUUUGGAAAACCACUUUUCCA--CCCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCAAUUGGCGAGCGGAAAAACUGGUUC-----------------
...((....))..(((((.((((((.--(...((((((........(((((((....)))))))...))))))..).))))))..))))).----------------- ( -22.10, z-score =  -0.49, R)
>droSim1.chr2L 10310564 88 - 22036055
ACUACUUUUGGAAAACCACUUUUCCA---CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUGGCGAGCGGAAAAACUGGUUC-----------------
.............(((((.((((((.---(..((((((.(......(((((((....))))))).).))))))..).))))))..))))).----------------- ( -23.50, z-score =  -1.13, R)
>consensus
_C_CCUUUUGGAAAACCACUUUUCCA___CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUGGCGAGCGGAAAAACUGGUUCG___GUGGUUC______
.............(((((.((((((....((((((((.........(((((((....))))))))))))))).....))))))..))))).................. (-16.09 = -17.27 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 10,505,671 – 10,505,779
Length 108
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 70.96
Shannon entropy 0.52748
G+C content 0.52536
Mean single sequence MFE -24.98
Consensus MFE -13.17
Energy contribution -14.98
Covariance contribution 1.81
Combinations/Pair 1.28
Mean z-score -1.26
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.55
SVM RNA-class probability 0.738261
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10505671 108 - 23011544
CCACAUCACAAACGACUCC------CCCCGCGAACUCCGCGCCUUUGGGAAAACCACUUUUCCU---CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUAGCGAGCGG
((.(.((.(...(((((..------...((((.....)))).....(((((((....)))))))---..))))).(((((....(((((((....)))))))..)))))).))).)) ( -26.10, z-score =  -0.27, R)
>droAna3.scaffold_12916 14351299 91 - 16180835
------------------------GCACAAGUCACUCCU-UCCUCUCGGAAAACCACUUCCCCACCAUGGAUUUCUGGUCUAGUUCAAGG-UUCUUUCCAGCUAGAUUGCCACCUGG
------------------------(((............-......((((((.(((...........))).))))))((((((((...((-......)))))))))))))....... ( -16.90, z-score =   0.20, R)
>droEre2.scaffold_4929 11719126 113 + 26641161
CCACUCCACAACCCACCACCCGCCGCCCCCCGAACUCCA-GCCUGCUGGAAAACCACUUUUCCA---CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUGGCGAGCGG
...................((((((((...(((...(((-..(((.(((((((....)))))))---.)))....)))......(((((((....))))))))))...)))).)))) ( -34.20, z-score =  -2.87, R)
>droYak2.chr2L 6913247 83 - 22324452
-------------------------------CCACUCCACCCCCCUUGGAAAACCACUUUUCCA---CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUGCCGAGCGG
-------------------------------((.(((.........(((((((....)))))))---.(((((((.........(((((((....))))))))))))))..))).)) ( -21.60, z-score =  -1.49, R)
>droSec1.super_3 5932599 109 - 7220098
CCACUUCACAAACGACUUC------CCCCGCUAACUCCACACCUUUUGGAAAACCACUUUUCCA--CCCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCAAUUGGCGAGCGG
...................------..(((((..............(((((((....)))))))--....((((((........(((((((....)))))))...)))))).))))) ( -23.20, z-score =  -0.97, R)
>droSim1.chr2L 10310576 108 - 22036055
CCACUUCACAAACGACUCC------CCCCGCUAACUCCACUACUUUUGGAAAACCACUUUUCCA---CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUGGCGAGCGG
...................------..(((((..............(((((((....)))))))---((((((((.........(((((((....)))))))))))))))..))))) ( -27.90, z-score =  -2.14, R)
>consensus
CCACUUCACAAACGACU_C______CCCCGCUAACUCCACGCCUUUUGGAAAACCACUUUUCCA___CCAGUCGAUGGUCUAGUUCAAGGCUUCUGUUUUGAUCGAUUGGCGAGCGG
...........................((((................((((((....))))))....((((((((.........(((((((....)))))))))))))))...)))) (-13.17 = -14.98 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:30:23 2011