Locus 10986

Sequence ID dm3.chr3R
Location 17,955,862 – 17,955,981
Length 119
Max. P 0.951266
window15098 window15099

overview

Window 8

Location 17,955,862 – 17,955,981
Length 119
Sequences 7
Columns 119
Reading direction forward
Mean pairwise identity 76.39
Shannon entropy 0.48806
G+C content 0.55750
Mean single sequence MFE -41.20
Consensus MFE -20.59
Energy contribution -22.67
Covariance contribution 2.08
Combinations/Pair 1.42
Mean z-score -2.11
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.57
SVM RNA-class probability 0.951266
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17955862 119 + 27905053
GGCAACUGCGGCAGAUGCAGCGGCAGUGCAAGGACAAGACGGACAAGUCCAACUACGAGCGAAAGCAGGCGACCGCCAAGGCGGAGGAGCUGGAACUGGAGUUGCAGUCCCGCCGUAGG
.(((.((((.((.......)).)))))))..((((...........))))..((((..((....)).(((..((((....)))).((..(((.(((....))).)))..))))))))). ( -53.60, z-score =  -3.67, R)
>dp4.chr2 12123399 119 + 30794189
GGCAGCUGCGGCAAAUGCAGCGUCAGUGCAAGGACAAGAUGGACAAAUCCAAUUACGAACGGAAACAGGCCUCAGCCAAGGCCGAGGAACUGGAACUGGAGCUGCAAUCGCGUCGCAAG
......((((((...((((((..((((....(..(.....)..)...((((.........(....)...((((.((....)).))))...))))))))..)))))).....)))))).. ( -41.10, z-score =  -1.69, R)
>droPer1.super_0 3449615 119 - 11822988
GGCAGCUGCGGCAAAUGCAGCGUCAGUGCAAGGACAAGAUGGACAAAUCCAAUUACGAACGGAAACAGGCCUCAGCCAAGGCCGAGGAACUGGAACUGGAGCUGCAGUCCCGUCGCAAA
....((.((((....((((((..((((....(..(.....)..)...((((.........(....)...((((.((....)).))))...))))))))..))))))...)))).))... ( -42.90, z-score =  -1.89, R)
>droWil1.scaffold_181130 12096310 119 + 16660200
GGCAGUUAAGGCAGAUGCAGCGUCAAUGCAAAGAUAAAGUCGACAAAUGCAAUUACGAAAGGAAACAGGCUUCAGCCAAGGCUGAUGAACUUGAACAGGAGUUGCAAUCGCGUCGCAAG
.((.((....)).(((((.(((....)))..................(((((((.(....)....((((..(((((....)))))....))))......)))))))...)))))))... ( -30.40, z-score =  -0.66, R)
>droVir3.scaffold_13047 10694126 119 - 19223366
GGCAGAUGCGGCAAAUGCAGCGUCAGUGCAAGGAUAAACUGGACAAAUCCAAUUACGAACGCAAACAGGCAACGGCCAAGGCCGAGGAACUGGAACUGGAGCUGCAAUCACGUCGCAAA
......((((((...((((((..((((((.((......))(((....)))..........))...(((.(..((((....))))..)..)))..))))..)))))).....)))))).. ( -39.90, z-score =  -2.64, R)
>droGri2.scaffold_15074 1088783 119 + 7742996
GGCAGAUGCGUCAAAUGCAGCGCCAGUGCAAGGACAAACUUGACAAAUCCAAUUACGAACGCAAACAGGCAUCGGCCAAGGCUGAGGAACUGGAUCUGGAGCUGCAGUCGCGACGCAAG
......((((((...((((((.((((((((((......)))).)).(((((.........((......)).(((((....))))).....))))))))).)))))).....)))))).. ( -44.50, z-score =  -3.02, R)
>anoGam1.chr3L 14825420 110 + 41284009
UUACGAUCCGCAGCAUGCAGAAGACGUGCAAGGAGAAGAUGGAAACGGUUGAGAAGGAGCGGAAGCAGGC----GCUCGAGCAGGUGAGCCGG--CUGGAG---GAGUUGGCCCGCAAG
...(..(((...((((((....).)))))..)))...)..(....)(.(((((.....((....))....----.))))).)..(((.(((((--((....---.))))))).)))... ( -36.00, z-score =  -1.20, R)
>consensus
GGCAGAUGCGGCAAAUGCAGCGUCAGUGCAAGGACAAGAUGGACAAAUCCAAUUACGAACGGAAACAGGCAUCAGCCAAGGCCGAGGAACUGGAACUGGAGCUGCAGUCGCGUCGCAAG
......((((((...((((((.(((((....((...........................(....)......((((....)))).....))...))))).)))))).....)))))).. (-20.59 = -22.67 +   2.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,955,862 – 17,955,981
Length 119
Sequences 7
Columns 119
Reading direction reverse
Mean pairwise identity 76.39
Shannon entropy 0.48806
G+C content 0.55750
Mean single sequence MFE -38.31
Consensus MFE -13.68
Energy contribution -14.29
Covariance contribution 0.61
Combinations/Pair 1.52
Mean z-score -2.01
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3R 17955862 119 - 27905053
CCUACGGCGGGACUGCAACUCCAGUUCCAGCUCCUCCGCCUUGGCGGUCGCCUGCUUUCGCUCGUAGUUGGACUUGUCCGUCUUGUCCUUGCACUGCCGCUGCAUCUGCCGCAGUUGCC
.((((((((((((((......)))))))(((.(..((((....))))..)...)))...)).)))))..((((..(.....)..))))..(((((((.((.......)).)))).))). ( -45.70, z-score =  -2.40, R)
>dp4.chr2 12123399 119 - 30794189
CUUGCGACGCGAUUGCAGCUCCAGUUCCAGUUCCUCGGCCUUGGCUGAGGCCUGUUUCCGUUCGUAAUUGGAUUUGUCCAUCUUGUCCUUGCACUGACGCUGCAUUUGCCGCAGCUGCC
.(((((..((((.((((((..((((..(((..(((((((....))))))).))).........((((..((((..(.....)..))))))))))))..)))))).)))))))))..... ( -45.10, z-score =  -3.26, R)
>droPer1.super_0 3449615 119 + 11822988
UUUGCGACGGGACUGCAGCUCCAGUUCCAGUUCCUCGGCCUUGGCUGAGGCCUGUUUCCGUUCGUAAUUGGAUUUGUCCAUCUUGUCCUUGCACUGACGCUGCAUUUGCCGCAGCUGCC
...((..(((((.((((((..((((..(((..(((((((....))))))).))).........((((..((((..(.....)..))))))))))))..)))))).)).)))..)).... ( -42.40, z-score =  -1.89, R)
>droWil1.scaffold_181130 12096310 119 - 16660200
CUUGCGACGCGAUUGCAACUCCUGUUCAAGUUCAUCAGCCUUGGCUGAAGCCUGUUUCCUUUCGUAAUUGCAUUUGUCGACUUUAUCUUUGCAUUGACGCUGCAUCUGCCUUAACUGCC
....(((((((((((((((....)))((.(((..(((((....)))))))).)).........))))))))....))))...........(((((((.((.......)).)))).))). ( -26.60, z-score =  -0.78, R)
>droVir3.scaffold_13047 10694126 119 + 19223366
UUUGCGACGUGAUUGCAGCUCCAGUUCCAGUUCCUCGGCCUUGGCCGUUGCCUGUUUGCGUUCGUAAUUGGAUUUGUCCAGUUUAUCCUUGCACUGACGCUGCAUUUGCCGCAUCUGCC
..((((..(..(.((((((..((((..(((.....((((....))))....)))...(((.....(((((((....)))))))......)))))))..)))))).)..)))))...... ( -40.20, z-score =  -3.01, R)
>droGri2.scaffold_15074 1088783 119 - 7742996
CUUGCGUCGCGACUGCAGCUCCAGAUCCAGUUCCUCAGCCUUGGCCGAUGCCUGUUUGCGUUCGUAAUUGGAUUUGUCAAGUUUGUCCUUGCACUGGCGCUGCAUUUGACGCAUCUGCC
..(((((((....((((((.((((((((((((.....((....))((((((......))).))).)))))))).((.((((......)))))))))).))))))..)))))))...... ( -42.20, z-score =  -2.33, R)
>anoGam1.chr3L 14825420 110 - 41284009
CUUGCGGGCCAACUC---CUCCAG--CCGGCUCACCUGCUCGAGC----GCCUGCUUCCGCUCCUUCUCAACCGUUUCCAUCUUCUCCUUGCACGUCUUCUGCAUGCUGCGGAUCGUAA
...((((((......---(((.((--(.((....)).))).))).----)))))).....................................(((...(((((.....))))).))).. ( -26.00, z-score =  -0.38, R)
>consensus
CUUGCGACGCGACUGCAGCUCCAGUUCCAGUUCCUCGGCCUUGGCUGAGGCCUGUUUCCGUUCGUAAUUGGAUUUGUCCAUCUUGUCCUUGCACUGACGCUGCAUUUGCCGCAGCUGCC
.((((((((((((((.(((....))).))).....((((....))))........)))))).)))))......................((((.......))))............... (-13.68 = -14.29 +   0.61)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:34:16 2011