Locus 3699

Sequence ID dm3.chr2R
Location 7,209,949 – 7,210,055
Length 106
Max. P 0.946653
window5067 window5068

overview

Window 7

Location 7,209,949 – 7,210,055
Length 106
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 96.04
Shannon entropy 0.07143
G+C content 0.48207
Mean single sequence MFE -38.50
Consensus MFE -33.04
Energy contribution -33.84
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.56
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.52
SVM RNA-class probability 0.946653
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 7209949 106 + 21146708
CAGCCAGAAGCGUUUGCAACCACAUGCACCACCUCAUCCACAGUUGAAUAGUUGAAUUGUGGAUGGGGUUAGUGGAUAGUGAAUAGUGGAUGGAGGUGCUGUAGCA
..((....((((..(.((.((((((.(((.(((((((((((((((.(.....).)))))))))))))))..))).))........)))).)).)..))))...)). ( -40.90, z-score =  -3.55, R)
>droSim1.chr2R 5759447 105 + 19596830
CAGCCAGAAGCGUUUGCAACCACAUGCACCACCUCAUCCACAGUUGAAUAGUUGAAU-GUGGAUGGGGUUACUGGAUAGUGGCUAGUGGAUAGUGGUGCUGUAGCA
..((.....((....))....(((.(((((((((((((((((.(..(....)..).)-))))))))).(((((((.......)))))))...)))))))))).)). ( -38.50, z-score =  -1.90, R)
>droSec1.super_1 4773880 106 + 14215200
CAGCCAGAAACGUUUGCAACCACAUGCACCACCUCAUCCACAGUUGAAUAGUUGAAUUGUGGAUGGGGUUACUGGAUAGUGGAUAGUGGAUAGUGGUGCUGUAGCA
(((((....(((((..(..((((((.((..(((((((((((((((.(.....).)))))))))))))))...)).)).))))...)..))).)).).))))..... ( -38.80, z-score =  -2.63, R)
>droYak2.chr2R 19206077 106 - 21139217
CAGCCAGAAGCGAUUGCAACCACAUGCACCACCUCAUCCACAGUUGAAUAGUUGAAUGGUGGAUGGGGUUAGUGGAUAGUGAGUAGUGGAUAGUGGUGCUGUAGCA
..((((....(.(((((...(((((.(((.(((((((((((..(..(....)..)...)))))))))))..))).)).))).))))).)....))))((....)). ( -36.30, z-score =  -1.98, R)
>droEre2.scaffold_4845 4007209 106 - 22589142
CAGCCAGAAGCGUUUGCAACCACAUGCACCACCUCAUCCACAGUUGAAUAGUUGAAUUGUGGAUGGGGUUAGUGGAUAGUGAAUAGUGGAUAGUGGUGCUGUAGCA
(((((....(((((..(...(((((.(((.(((((((((((((((.(.....).)))))))))))))))..))).)).)))....)..))).)).).))))..... ( -38.00, z-score =  -2.73, R)
>consensus
CAGCCAGAAGCGUUUGCAACCACAUGCACCACCUCAUCCACAGUUGAAUAGUUGAAUUGUGGAUGGGGUUAGUGGAUAGUGAAUAGUGGAUAGUGGUGCUGUAGCA
.........((....(((.((((((.(((.(((((((((((((((.(.....).))))))))))))))).......((.....))))).)).)))))))....)). (-33.04 = -33.84 +   0.80)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,209,949 – 7,210,055
Length 106
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 96.04
Shannon entropy 0.07143
G+C content 0.48207
Mean single sequence MFE -29.79
Consensus MFE -27.10
Energy contribution -27.38
Covariance contribution 0.28
Combinations/Pair 1.08
Mean z-score -2.08
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.27
SVM RNA-class probability 0.918794
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 7209949 106 - 21146708
UGCUACAGCACCUCCAUCCACUAUUCACUAUCCACUAACCCCAUCCACAAUUCAACUAUUCAACUGUGGAUGAGGUGGUGCAUGUGGUUGCAAACGCUUCUGGCUG
.((((.(((.....((.((((.((.((((........(((.((((((((...............)))))))).))))))).)))))).)).....)))..)))).. ( -29.06, z-score =  -2.25, R)
>droSim1.chr2R 5759447 105 - 19596830
UGCUACAGCACCACUAUCCACUAGCCACUAUCCAGUAACCCCAUCCAC-AUUCAACUAUUCAACUGUGGAUGAGGUGGUGCAUGUGGUUGCAAACGCUUCUGGCUG
.((((((((((((((...........(((....))).....(((((((-(..............)))))))).)))))))).)))))).......((.....)).. ( -32.04, z-score =  -1.98, R)
>droSec1.super_1 4773880 106 - 14215200
UGCUACAGCACCACUAUCCACUAUCCACUAUCCAGUAACCCCAUCCACAAUUCAACUAUUCAACUGUGGAUGAGGUGGUGCAUGUGGUUGCAAACGUUUCUGGCUG
.((((((((((((((...........(((....))).....((((((((...............)))))))).)))))))).)))))).................. ( -31.06, z-score =  -2.19, R)
>droYak2.chr2R 19206077 106 + 21139217
UGCUACAGCACCACUAUCCACUACUCACUAUCCACUAACCCCAUCCACCAUUCAACUAUUCAACUGUGGAUGAGGUGGUGCAUGUGGUUGCAAUCGCUUCUGGCUG
.....(((((((((.((.(((((((...(((((((..............................))))))).))))))).))))))).((....)).....)))) ( -27.71, z-score =  -1.68, R)
>droEre2.scaffold_4845 4007209 106 + 22589142
UGCUACAGCACCACUAUCCACUAUUCACUAUCCACUAACCCCAUCCACAAUUCAACUAUUCAACUGUGGAUGAGGUGGUGCAUGUGGUUGCAAACGCUUCUGGCUG
.((((((((((((((.............((.....))....((((((((...............)))))))).)))))))).)))))).......((.....)).. ( -29.06, z-score =  -2.27, R)
>consensus
UGCUACAGCACCACUAUCCACUAUUCACUAUCCACUAACCCCAUCCACAAUUCAACUAUUCAACUGUGGAUGAGGUGGUGCAUGUGGUUGCAAACGCUUCUGGCUG
.((((((((((((((.............((.....))....((((((((...............)))))))).)))))))).)))))).......((.....)).. (-27.10 = -27.38 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:15:01 2011