Locus 2905

Sequence ID dm3.chr2RHet
Location 1,921,238 – 1,921,390
Length 152
Max. P 0.993691
window3998 window3999

overview

Window 8

Location 1,921,238 – 1,921,358
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 63.37
Shannon entropy 0.61885
G+C content 0.48187
Mean single sequence MFE -37.62
Consensus MFE -14.96
Energy contribution -18.52
Covariance contribution 3.56
Combinations/Pair 1.48
Mean z-score -2.45
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.45
SVM RNA-class probability 0.991057
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 1921238 120 + 3288761
AGUACAAGAAGCUCAUUCUGAAGGUCAAAGAGGAUAACUGGAGGCGCUUCGUGGGAGAGAACAAAGACGAUCCAUGGGAGCAAGGCUUUAGGAUUUGCCGUGGCCGCAAAAGAACAACCG
...............((((...(((((....((....((((((.((((((...(((..(........)..)))...)))))..).))))))......)).))))).....))))...... ( -28.60, z-score =   0.60, R)
>droAna3.scaffold_2260 573 118 - 1903
AGUACAAGCAUAGGGUUUUGCGUGUGAAAGAUGAUGAGUGGCGUUCUUUCGUAGAUCGAAAUAAACACGAUCCCUGGGGUCGUGUUUACAAGAUUCUGCGGGAGAAUGGGAAGGAGGG--
..((((.(((........))).))))...............((((((..((((((((....((((((((((((...))))))))))))...)).))))))..))))))..........-- ( -41.60, z-score =  -4.23, R)
>dp4.Unknown_singleton_3471 14439 115 + 15135
AGUACAAGGAAAUGCUUGUAAAAGUGGAAGAGGCUGAGUGGCGUUCCUUUUUGGAGCGCAAUAAGGACGAUCCCUGGGGUCGUGCUUAUAAAAUAGUUCGAGGUAGUGCUAGGGA-----
(((((........((((....))))....(((.(((....(((((((.....))))))).(((((.(((((((...))))))).)))))....))))))......))))).....----- ( -36.80, z-score =  -2.39, R)
>droVir3.scaffold_13050 2974550 120 - 3426691
AGUACAAGCAAAUGCUUGUAAAGGUGAACGAAGAUGAGUGCCGCUCUUUCCUGGAGCGCAAUAAGGAUGACCCUUGGGGUCGUGCUUAUAAAAUAGUUCGAGGUAGAGGCAGGGAAACGG
..(((((((....)))))))..(((..((........)))))((.(((((((.((((...(((((.(((((((...))))))).)))))......)))).))).))))))..(....).. ( -43.50, z-score =  -3.79, R)
>consensus
AGUACAAGCAAAUGCUUGUAAAGGUGAAAGAGGAUGAGUGGCGUUCCUUCGUGGAGCGCAAUAAAGACGAUCCCUGGGGUCGUGCUUAUAAAAUAGUUCGAGGUAGUGGAAGGGAAAC__
..((((((......))))))..................(((((((((((((.........(((((.(((((((...))))))).))))).........)))))))))))))......... (-14.96 = -18.52 +   3.56)

alignment

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secondary structure

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dotplot

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Window 9

Location 1,921,278 – 1,921,390
Length 112
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 51.86
Shannon entropy 0.80473
G+C content 0.52488
Mean single sequence MFE -41.65
Consensus MFE -12.44
Energy contribution -14.82
Covariance contribution 2.38
Combinations/Pair 1.57
Mean z-score -2.44
Structure conservation index 0.30
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.64
SVM RNA-class probability 0.993691
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 1921278 112 + 3288761
GAGGCGCUUCGUGGGAGAGAACAAAGACGAUCCAUGGGAGCAAGGCUUUAGGAUUUGCCGUGGCCGCAAAAGAACA---ACCGAACUCGGUUGUCAUCGCUCAUGUGGCAGGCAG----
((((((((((...(((..(........)..)))...)))))...)))))......((((...((((((..((.(((---((((....))))))).....))..)))))).)))).---- ( -40.50, z-score =  -1.84, R)
>droAna3.scaffold_2260 613 118 - 1903
GCGUUCUUUCGUAGAUCGAAAUAAACACGAUCCCUGGGGUCGUGUUUACAAGAUUCUGCGGGAGAAUGGGAAGGAGGGGUCCAGGGAUAUUUGU-GCCCUACGGGUUGAAGGUCGAGAC
.((((((..((((((((....((((((((((((...))))))))))))...)).))))))..)))))).......((((..((((....)))).-.)))).(((.(....).))).... ( -46.40, z-score =  -3.36, R)
>dp4.Unknown_singleton_3471 14479 115 + 15135
GCGUUCCUUUUUGGAGCGCAAUAAGGACGAUCCCUGGGGUCGUGCUUAUAAAAUAGUUCGAGGUAGUGCUAGGGAA---CCUACGAGUGUGUGU-GCUCUUCAAGUCAGAGGCACUUUG
(((((((.....))))))).(((((.(((((((...))))))).)))))........(((((((...........)---))).)))((((.(.(-(((.....)).)).).)))).... ( -39.90, z-score =  -2.12, R)
>droVir3.scaffold_13050 2974590 105 - 3426691
CCGCUCUUUCCUGGAGCGCAAUAAGGAUGACCCUUGGGGUCGUGCUUAUAAAAUAGUUCGAGGUAGAGGCAGGGAA---ACGG-AUGCCCGUGU-GUUGGCAACGUUCAG---------
((((.(((((((.((((...(((((.(((((((...))))))).)))))......)))).))).)))))).))(((---.((.-.((((.....-...)))).)))))..--------- ( -39.80, z-score =  -2.46, R)
>consensus
GCGUUCCUUCGUGGAGCGCAAUAAAGACGAUCCCUGGGGUCGUGCUUAUAAAAUAGUUCGAGGUAGUGGAAGGGAA___ACCA_AAGCGUGUGU_GCCCUUCAAGUUGAAGGCAG____
(((((((((((.........(((((.(((((((...))))))).))))).........))))))))))).................................................. (-12.44 = -14.82 +   2.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:00:09 2011