Locus 2141

Sequence ID dm3.chr2L
Location 16,567,582 – 16,567,706
Length 124
Max. P 0.956331
window2947 window2948

overview

Window 7

Location 16,567,582 – 16,567,690
Length 108
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 71.31
Shannon entropy 0.46154
G+C content 0.30545
Mean single sequence MFE -23.20
Consensus MFE -13.19
Energy contribution -12.70
Covariance contribution -0.50
Combinations/Pair 1.30
Mean z-score -2.00
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.63
SVM RNA-class probability 0.956331
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16567582 108 + 23011544
UACACCCGGAAGAAUAUUUGUUUUUAAGCACUAA-----------AGUAAAUAGCGAAGGUGCUUAAAAGUAAACUUUA-AAAACAACUAAAAUGGUGGUUUUCCAGCAAAAUAUAACAU
..(((((....)....((((((((((((((((..-----------.((.....))...)))))))))))))))).....-..............))))...................... ( -21.60, z-score =  -2.06, R)
>droSim1.chr2L 16262031 120 + 22036055
UACACCCGGAAGAAUAUUUGUUUUUAAGCACUAACUGCGAUUUAAAGUAAAUAGCGAAGGUGCUUAAAAGUUUGCUUUGGAAAAUAACUAAAAUGGCGGUUUUCCAGCAAAAUAUAACAU
......(....)........((((((((((((...(((.(((((...))))).)))..))))))))))))((((((..(((((((..((.....))..)))))))))))))......... ( -29.30, z-score =  -2.60, R)
>droSec1.super_7 214713 110 + 3727775
UACACCCGGAAGAAUAUUUGUUUUUAAGCACUAAC---------GGCGAUUUACCGAAGGUGCUUAAAAGUAUACUUUGGAAAAUAACUAAA-UGGCGGUUUUUCAGCAAAAUACAAAAU
......(....).........(((((((((((..(---------((.......)))..)))))))))))((((...(((((((((..((...-.))..)))))))))....))))..... ( -25.30, z-score =  -2.42, R)
>droEre2.scaffold_4845 19635961 106 + 22589142
UACACCCGAUAGGACAUUUGUUUUUAAGCACUUACUACGAUUUACACUUUAAUGCAAAGGUGUUUUAAAGUAUAGUUAGGAAAAUAAUUAAAGUAA-AUUAUAUCAU-------------
.......((((((((....))))...............((((((((((((((.(((....))).))))))).((((((......))))))..))))-))).))))..------------- ( -16.60, z-score =  -0.91, R)
>consensus
UACACCCGGAAGAAUAUUUGUUUUUAAGCACUAAC__________ACUAAAUAGCGAAGGUGCUUAAAAGUAUACUUUGGAAAAUAACUAAAAUGGCGGUUUUCCAGCAAAAUAUAACAU
.......((((((.......((((((((((((..........................)))))))))))).....(((((.......))))).......))))))............... (-13.19 = -12.70 +  -0.50)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 16,567,616 – 16,567,706
Length 90
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 79.28
Shannon entropy 0.28285
G+C content 0.31756
Mean single sequence MFE -16.64
Consensus MFE -15.57
Energy contribution -15.69
Covariance contribution 0.12
Combinations/Pair 1.18
Mean z-score -0.80
Structure conservation index 0.94
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.38
SVM RNA-class probability 0.667681
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16567616 90 - 23011544
-------GGCUGAAAAGUAUACAAUGUUAUAUUUUGCUGGAAAACCACCAUUUUAGUUGUUUU-UAAAGUUUACUUUUAAGCACCUUCGCUAUUUACU-----
-------.(((.(((((((.((....(((......(((((((........)))))))......-))).)).))))))).)))................----- ( -14.10, z-score =  -0.43, R)
>droSim1.chr2L 16262071 103 - 22036055
CUUCCAAGGCUGAAAAGUAUGCAAUGUUAUAUUUUGCUGGAAAACCGCCAUUUUAGUUAUUUUCCAAAGCAAACUUUUAAGCACCUUCGCUAUUUACUUUAAA
........(((.((((((.(((...((........))(((((((..((.......))..)))))))..))).)))))).)))..................... ( -18.50, z-score =  -0.86, R)
>droSec1.super_7 214753 93 - 3727775
CUUUCAAGGCUGAAAAGUAUGCAAUUUUGUAUUUUGCUGAAAAACCGCCA-UUUAGUUAUUUUCCAAAGUAUACUUUUAAGCACCUUCGGUAAA---------
........(((.((((((((((...((((......((((((.........-)))))).......)))))))))))))).)))(((...)))...--------- ( -17.32, z-score =  -1.12, R)
>consensus
CUU_CAAGGCUGAAAAGUAUGCAAUGUUAUAUUUUGCUGGAAAACCGCCAUUUUAGUUAUUUUCCAAAGUAUACUUUUAAGCACCUUCGCUAUUUACU_____
........(((.((((((((((........((...(((((((........))))))).))........)))))))))).)))..................... (-15.57 = -15.69 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:45:34 2011