Locus 10802

Sequence ID dm3.chr3R
Location 16,578,772 – 16,578,894
Length 122
Max. P 0.995665
window14841 window14842 window14843 window14844

overview

Window 1

Location 16,578,772 – 16,578,889
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.29
Shannon entropy 0.15208
G+C content 0.48466
Mean single sequence MFE -36.29
Consensus MFE -28.96
Energy contribution -30.00
Covariance contribution 1.04
Combinations/Pair 1.03
Mean z-score -2.37
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.23
SVM RNA-class probability 0.912923
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16578772 117 + 27905053
AUUCUUUUUGAAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCAGCCAAGGAUUUAUGCCCCUUUCGAGAAAGUCCUUUCAGU---GCUUGGCCGCUGUAUCGUUUACACUC
.(((.....)))(((.(((.......))).)))(((.((.(((((((((((.((((((.(((.......((((....)))).......)))---.)))))).))))))))))).))))). ( -37.54, z-score =  -2.87, R)
>droEre2.scaffold_4770 12661970 117 - 17746568
AUUAUUUUUGGAGGCCUUAUGAAAUCGAUUGCUGGUUGUCAACGAUCCAGCGGCCAAGGACUCAUGCCCCUUUCGAGAACAUCCUCCCAAU---GCUUAGCCGCUGUAUCGUUUACACUC
..........((((((.................)))(((.((((((.(((((((.((((.........))))..(((......))).....---.....))))))).)))))).)))))) ( -29.23, z-score =  -0.89, R)
>droYak2.chr3R 5371136 120 + 28832112
AUUCUUUUUCGAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCGGCCAAGCACUCACGCCCCUUUCGAGAACGUUCUCACAAAACAGCUUAGCCGCUGUAUCGUUUACACAC
............(((.(((.......))).)))...(((.((((((((((((((.((((.(((...........)))...(((.......))).)))).)))))))))))))).)))... ( -38.90, z-score =  -3.72, R)
>droSec1.super_27 641979 117 - 799419
AUUCUUUUUGGAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCAGCCAAGGAUUCAUGCCCCUUUCGAGAACGUCCUCUCAGU---GCUUGGCCGCUGUAUCGUUUACACUC
..(((....)))(((.(((.......))).)))(((.((.(((((((((((.((((((.(((............((((......)))))))---.)))))).))))))))))).))))). ( -37.90, z-score =  -2.19, R)
>droSim1.chr3R 22633132 117 - 27517382
AUUCUUUUUGGAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCAGCCAAGGAUUCAUGCCCCUUUCGAGAACGUCCUCUCAGU---GCUUGGCCGCUGUAUCGUUUACACUC
..(((....)))(((.(((.......))).)))(((.((.(((((((((((.((((((.(((............((((......)))))))---.)))))).))))))))))).))))). ( -37.90, z-score =  -2.19, R)
>consensus
AUUCUUUUUGGAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCAGCCAAGGAUUCAUGCCCCUUUCGAGAACGUCCUCUCAGU___GCUUGGCCGCUGUAUCGUUUACACUC
............(((.(((.......))).)))...(((.(((((((((((.((((((((............))(((......))).........)))))).))))))))))).)))... (-28.96 = -30.00 +   1.04)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,578,772 – 16,578,889
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.29
Shannon entropy 0.15208
G+C content 0.48466
Mean single sequence MFE -41.70
Consensus MFE -37.26
Energy contribution -36.78
Covariance contribution -0.48
Combinations/Pair 1.12
Mean z-score -3.17
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.83
SVM RNA-class probability 0.995665
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16578772 117 - 27905053
GAGUGUAAACGAUACAGCGGCCAAGC---ACUGAAAGGACUUUCUCGAAAGGGGCAUAAAUCCUUGGCUGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUUCAAAAAGAAU
(..(((.((((((.(((((((((((.---.((....))....((((....))))........))))))))))).)))))).)))..).((.(((.......))).))............. ( -39.50, z-score =  -3.47, R)
>droEre2.scaffold_4770 12661970 117 + 17746568
GAGUGUAAACGAUACAGCGGCUAAGC---AUUGGGAGGAUGUUCUCGAAAGGGGCAUGAGUCCUUGGCCGCUGGAUCGUUGACAACCAGCAAUCGAUUUCAUAAGGCCUCCAAAAAUAAU
((((((.((((((.((((((((....---.(((((((....))))))).((((((....)))))))))))))).)))))).)))....((....(....).....))))).......... ( -37.30, z-score =  -1.95, R)
>droYak2.chr3R 5371136 120 - 28832112
GUGUGUAAACGAUACAGCGGCUAAGCUGUUUUGUGAGAACGUUCUCGAAAGGGGCGUGAGUGCUUGGCCGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUCGAAAAAGAAU
((.(((.((((((.((((((((((((.((((.....))))...(((....)))((....)))))))))))))).)))))).)))....))..((((..((....))..))))........ ( -46.30, z-score =  -3.54, R)
>droSec1.super_27 641979 117 + 799419
GAGUGUAAACGAUACAGCGGCCAAGC---ACUGAGAGGACGUUCUCGAAAGGGGCAUGAAUCCUUGGCUGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUCCAAAAAGAAU
((((((.((((((.(((((((((((.---.((....)).(((((((....)))).)))....))))))))))).)))))).)))....((.(((.......))).))))).......... ( -42.70, z-score =  -3.45, R)
>droSim1.chr3R 22633132 117 + 27517382
GAGUGUAAACGAUACAGCGGCCAAGC---ACUGAGAGGACGUUCUCGAAAGGGGCAUGAAUCCUUGGCUGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUCCAAAAAGAAU
((((((.((((((.(((((((((((.---.((....)).(((((((....)))).)))....))))))))))).)))))).)))....((.(((.......))).))))).......... ( -42.70, z-score =  -3.45, R)
>consensus
GAGUGUAAACGAUACAGCGGCCAAGC___ACUGAGAGGACGUUCUCGAAAGGGGCAUGAAUCCUUGGCUGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUCCAAAAAGAAU
(..(((.((((((.(((((((((((.....((....))....((((....))))........))))))))))).)))))).)))..).((.(((.......))).))............. (-37.26 = -36.78 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 3

Location 16,578,777 – 16,578,894
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.03
Shannon entropy 0.15749
G+C content 0.49658
Mean single sequence MFE -37.67
Consensus MFE -30.22
Energy contribution -31.26
Covariance contribution 1.04
Combinations/Pair 1.03
Mean z-score -2.08
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.77
SVM RNA-class probability 0.813158
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16578777 117 + 27905053
UUUUGAAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCAGCCAAGGAUUUAUGCCCCUUUCGAGAAAGUCCUUUCAGU---GCUUGGCCGCUGUAUCGUUUACACUCGUUGG
.......(((.(((.......))).)))(..(((.(((((((((((.((((((.(((.......((((....)))).......)))---.)))))).))))))))))).)))..)..... ( -38.54, z-score =  -2.47, R)
>droEre2.scaffold_4770 12661975 117 - 17746568
UUUUGGAGGCCUUAUGAAAUCGAUUGCUGGUUGUCAACGAUCCAGCGGCCAAGGACUCAUGCCCCUUUCGAGAACAUCCUCCCAAU---GCUUAGCCGCUGUAUCGUUUACACUCGUUGA
.....((((((.................)))(((.((((((.(((((((.((((.........))))..(((......))).....---.....))))))).)))))).))))))..... ( -30.93, z-score =  -0.67, R)
>droYak2.chr3R 5371141 120 + 28832112
UUUUCGAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCGGCCAAGCACUCACGCCCCUUUCGAGAACGUUCUCACAAAACAGCUUAGCCGCUGUAUCGUUUACACACGUUGU
.......(((.(((.......))).))).(((((.((((((((((((((.((((.(((...........)))...(((.......))).)))).)))))))))))))).))).))..... ( -39.70, z-score =  -3.02, R)
>droSec1.super_27 641984 117 - 799419
UUUUGGAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCAGCCAAGGAUUCAUGCCCCUUUCGAGAACGUCCUCUCAGU---GCUUGGCCGCUGUAUCGUUUACACUCGUUGU
.....(((((.(((.......))).))....(((.(((((((((((.((((((.(((............((((......)))))))---.)))))).))))))))))).))))))..... ( -39.60, z-score =  -2.12, R)
>droSim1.chr3R 22633137 117 - 27517382
UUUUGGAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCAGCCAAGGAUUCAUGCCCCUUUCGAGAACGUCCUCUCAGU---GCUUGGCCGCUGUAUCGUUUACACUCGUUGU
.....(((((.(((.......))).))....(((.(((((((((((.((((((.(((............((((......)))))))---.)))))).))))))))))).))))))..... ( -39.60, z-score =  -2.12, R)
>consensus
UUUUGGAGGCCAUCUGAAAUCGAUUGCUGGUUGUCAACGAUGCAGCAGCCAAGGAUUCAUGCCCCUUUCGAGAACGUCCUCUCAGU___GCUUGGCCGCUGUAUCGUUUACACUCGUUGU
.......(((.(((.......))).)))(..(((.(((((((((((.((((((((............))(((......))).........)))))).))))))))))).)))..)..... (-30.22 = -31.26 +   1.04)

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 16,578,777 – 16,578,894
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.03
Shannon entropy 0.15749
G+C content 0.49658
Mean single sequence MFE -42.06
Consensus MFE -37.56
Energy contribution -37.08
Covariance contribution -0.48
Combinations/Pair 1.12
Mean z-score -3.00
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.68
SVM RNA-class probability 0.994215
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16578777 117 - 27905053
CCAACGAGUGUAAACGAUACAGCGGCCAAGC---ACUGAAAGGACUUUCUCGAAAGGGGCAUAAAUCCUUGGCUGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUUCAAAA
.....(..(((.((((((.(((((((((((.---.((....))....((((....))))........))))))))))).)))))).)))..).((.(((.......))).))........ ( -39.80, z-score =  -3.34, R)
>droEre2.scaffold_4770 12661975 117 + 17746568
UCAACGAGUGUAAACGAUACAGCGGCUAAGC---AUUGGGAGGAUGUUCUCGAAAGGGGCAUGAGUCCUUGGCCGCUGGAUCGUUGACAACCAGCAAUCGAUUUCAUAAGGCCUCCAAAA
....(((.(((.((((((.((((((((....---.(((((((....))))))).((((((....)))))))))))))).)))))).)))........))).................... ( -37.90, z-score =  -1.68, R)
>droYak2.chr3R 5371141 120 - 28832112
ACAACGUGUGUAAACGAUACAGCGGCUAAGCUGUUUUGUGAGAACGUUCUCGAAAGGGGCGUGAGUGCUUGGCCGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUCGAAAA
.....((.(((.((((((.((((((((((((.((((.....))))...(((....)))((....)))))))))))))).)))))).)))....))..((((..((....))..))))... ( -46.60, z-score =  -3.21, R)
>droSec1.super_27 641984 117 + 799419
ACAACGAGUGUAAACGAUACAGCGGCCAAGC---ACUGAGAGGACGUUCUCGAAAGGGGCAUGAAUCCUUGGCUGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUCCAAAA
.....((((((.((((((.(((((((((((.---.((....)).(((((((....)))).)))....))))))))))).)))))).)))....((.(((.......))).)))))..... ( -43.00, z-score =  -3.39, R)
>droSim1.chr3R 22633137 117 + 27517382
ACAACGAGUGUAAACGAUACAGCGGCCAAGC---ACUGAGAGGACGUUCUCGAAAGGGGCAUGAAUCCUUGGCUGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUCCAAAA
.....((((((.((((((.(((((((((((.---.((....)).(((((((....)))).)))....))))))))))).)))))).)))....((.(((.......))).)))))..... ( -43.00, z-score =  -3.39, R)
>consensus
ACAACGAGUGUAAACGAUACAGCGGCCAAGC___ACUGAGAGGACGUUCUCGAAAGGGGCAUGAAUCCUUGGCUGCUGCAUCGUUGACAACCAGCAAUCGAUUUCAGAUGGCCUCCAAAA
.....(..(((.((((((.(((((((((((.....((....))....((((....))))........))))))))))).)))))).)))..).((.(((.......))).))........ (-37.56 = -37.08 +  -0.48)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:30:44 2011