Locus 4202

Sequence ID dm3.chr2R
Location 11,254,799 – 11,254,908
Length 109
Max. P 0.999034
window5761 window5762

overview

Window 1

Location 11,254,799 – 11,254,895
Length 96
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 71.33
Shannon entropy 0.54128
G+C content 0.35189
Mean single sequence MFE -19.82
Consensus MFE -9.04
Energy contribution -8.68
Covariance contribution -0.36
Combinations/Pair 1.33
Mean z-score -1.71
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.862783
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 11254799 96 - 21146708
-GUUAUCUUUGGAAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGUUAGGUAAAACUGGCAAAACUUUUAAAAACUC----AACGGAUACAUUGAAC-----
-......((((....))))(((((((((((..(((....)))(((...(((((......)))))...)))...........----.)))))).)))))...----- ( -21.60, z-score =  -2.40, R)
>droEre2.scaffold_4845 7972122 95 + 22589142
-GUUAUCUUUGGAAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGAUAGGUGAAACUGGGAAAACUUACAA----------AACGAAUACGUUCAACGGAUA
-..((((((((....)))...(((.(((((..(((....)))(((.....(((......))).....))).....----------.)))))))).......))))) ( -17.50, z-score =  -0.74, R)
>droYak2.chr2R 3393567 100 + 21139217
-GUCAUCUUUGGAAACAAAUAGUGAUUUGUCACUGGAAACGGGGUGAAGAUAGGUGAAGUUGGGUGAAACUGGGAAAACUUUCAAAACGGAUACAUUAAAC-----
-.(((((((((....))))......((..((.(((....)))))..))....))))).(((..(((...(((.(((....)))....)))...)))..)))----- ( -21.40, z-score =  -1.44, R)
>droSec1.super_1 8738785 96 - 14215200
-GUUAUCUUUGGAAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGGUAGGUGAAACUGGCAAAACUUUUAAAAACUC----AACGGAUACAUUGAAC-----
-......((((....))))(((((((((((..(((....)))(((...(.(((......))).)...)))...........----.)))))).)))))...----- ( -19.60, z-score =  -1.31, R)
>droSim1.chr2R 9983401 96 - 19596830
-GUUAUCUUUGGAAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGGUAGGUGAAACUGGCAAAACUUUUAAAAACUC----AACGGAUACAUUGAAC-----
-......((((....))))(((((((((((..(((....)))(((...(.(((......))).)...)))...........----.)))))).)))))...----- ( -19.60, z-score =  -1.31, R)
>droMoj3.scaffold_6496 24235948 100 + 26866924
GGUUAGUUUGAAAAGU---UGACAAGCUAACACAAAAAACA-UGUGAAUUUAAAUAAAAACGAAAUACUUCUCAA--ACUAACCUCGCAUAUACAUAGUAGUUAAA
(((((((((((..(((---(....))))..((((.......-)))).........................))))--)))))))...................... ( -19.20, z-score =  -3.06, R)
>consensus
_GUUAUCUUUGGAAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGAUAGGUGAAACUGGCAAAACUUUUAAAAACUC____AACGGAUACAUUGAAC_____
..(((((((((....)))...........((((((....)..)))))....))))))................................................. ( -9.04 =  -8.68 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 2

Location 11,254,807 – 11,254,908
Length 101
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 75.05
Shannon entropy 0.44331
G+C content 0.34414
Mean single sequence MFE -27.64
Consensus MFE -11.94
Energy contribution -12.82
Covariance contribution 0.88
Combinations/Pair 1.33
Mean z-score -4.01
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.61
SVM RNA-class probability 0.999034
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 11254807 101 - 21146708
GUUUGUUGGAUUAGUUAUCUUUGG---AAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGUUAGGUAAAACUGGCAAAACUUUUAAAAACUCAACGGAUA--
(((((((((((.((((((.((((.---...))))..)))))).))).(((....)))(((...(((((......)))))...)))..........)))))))).-- ( -27.20, z-score =  -3.46, R)
>droEre2.scaffold_4845 7972135 95 + 22589142
GUUUGUUGGAUAAGUUAUCUUUGG---AAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGAUAGGUGAAACUGGGAAAACUUACAAAA------CGAAUA--
(((((((...((((((.((((((.---...))).((((.(((((((.(((....)))......)))))))...))))))).))))))...))------))))).-- ( -25.50, z-score =  -4.03, R)
>droSec1.super_1 8738793 101 - 14215200
GUUUGUUGGAUAAGUUAUCUUUGG---AAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGGUAGGUGAAACUGGCAAAACUUUUAAAAACUCAACGGAUA--
((((((((((((((((((.((((.---...))))..)))))))))).(((....)))(((...(.(((......))).)...)))..........)))))))).-- ( -28.80, z-score =  -3.94, R)
>droSim1.chr2R 9983409 101 - 19596830
GUUUGUUGGAUAAGUUAUCUUUGG---AAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGGUAGGUGAAACUGGCAAAACUUUUAAAAACUCAACGGAUA--
((((((((((((((((((.((((.---...))))..)))))))))).(((....)))(((...(.(((......))).)...)))..........)))))))).-- ( -28.80, z-score =  -3.94, R)
>droMoj3.scaffold_6496 24235961 105 + 26866924
GUUCGUUGAGCAAGACGAGGUUAGUUUGAAAAGUUGACAAGCUAACACAAAAAACA-UGUGAAUUUAAAUAAAAACGAAAUACUUCUCAAACUAACCUCGCAUAUA
((((...))))..(.((((((((((((((..((((....))))..((((.......-)))).........................)))))))))))))))..... ( -27.90, z-score =  -4.67, R)
>consensus
GUUUGUUGGAUAAGUUAUCUUUGG___AAACAAAUAGUGAUUUGUCACUGGAAACAGGGUGAAGGUAGGUGAAACUGGCAAAACUUUUAAAAACUCAACGGAUA__
.((((((((...(.(((((((((......((((((....))))))..(((....)))..))))))))).)....))))))))........................ (-11.94 = -12.82 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:24:43 2011