Locus 7813

Sequence ID dm3.chr3L
Location 17,517,291 – 17,517,392
Length 101
Max. P 0.999503
window10748 window10749

overview

Window 8

Location 17,517,291 – 17,517,392
Length 101
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 51.15
Shannon entropy 0.88435
G+C content 0.48980
Mean single sequence MFE -28.61
Consensus MFE -15.80
Energy contribution -16.32
Covariance contribution 0.52
Combinations/Pair 1.18
Mean z-score -0.73
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.21
SVM RNA-class probability 0.985785
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17517291 101 + 24543557
GUCUCUCUGAUUUUACAGUUUUUUAUAUAUUUUGACUUAGGCUAAUC-CGCGUAGCUGCGCUGCCGGGUACGCCAGCAGCGGAGCGGCGUUCUUAUGUAUAU--
......(((......))).....(((((((...((....((.....)-)((((.(((.((((((.((.....)).)))))).))).))))))..))))))).-- ( -29.40, z-score =  -0.79, R)
>droSim1.chr3h_random 107918 90 - 1452968
------UUGGCGAUCUA--AAUACAAUGGUUUCUU---AGCCUAA-GUCGAAGAGCAGCGCUGCCGGCAUAGCCUGCAGCGCAGCGACGCUUAUUUGCGUUU--
------(((((......--........((((....---))))...-)))))...((.(((((((.(((...))).))))))).))(((((......))))).-- ( -31.73, z-score =  -1.05, R)
>droEre2.scaffold_4855 7528 89 + 242605
--GUAUCUGGCGAUACAUUCUUAAGUAUAUUUCGGCUAAACCUAAAACCGCGUAGCUGCGCUGCCAGCUACGCCAGCAGCGGAGCGGCUCU-------------
--(((.((((((((((........))))....((((((..(........)..))))))...)))))).)))(((.((......)))))...------------- ( -25.10, z-score =   0.47, R)
>droAna3.scaffold_13339 1856681 95 + 4599533
-------UGAAUUUCCAUUACAAUUUUUACUUAUUCUAAAACUUACGAUACAAGACUGCGCUGCUGCAGAGGGCAGCGGCUGAGCGUCAGCAAUAUAUUACU--
-------..............................................(((.((((((((((.....))))))))...)))))..............-- ( -19.00, z-score =  -0.28, R)
>droPer1.super_81 267482 90 - 277874
------------UUCUG--AAUUUUUUGGGCUUUUGUAAGCCAAAAGCCGCGGAGCUGCGCUGCCAGUGACGCCGGCAGCGGAGCGGCAGAACUAUGUGUUCUU
------------.....--.........((((((((.....))))))))((...(((.(((((((.(.....).))))))).))).))(((((.....))))). ( -37.80, z-score =  -2.01, R)
>consensus
_______UGACGUUCCA_UAAUAUAUUUAUUUCUUCUAAGCCUAAAGCCGCGGAGCUGCGCUGCCGGCGACGCCAGCAGCGGAGCGGCACUAAUAUGUGUUU__
......................................................(((.((((((.((.....)).)))))).)))................... (-15.80 = -16.32 +   0.52)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 17,517,291 – 17,517,392
Length 101
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 51.15
Shannon entropy 0.88435
G+C content 0.48980
Mean single sequence MFE -29.28
Consensus MFE -18.66
Energy contribution -18.50
Covariance contribution -0.16
Combinations/Pair 1.42
Mean z-score -1.52
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.95
SVM RNA-class probability 0.999503
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17517291 101 - 24543557
--AUAUACAUAAGAACGCCGCUCCGCUGCUGGCGUACCCGGCAGCGCAGCUACGCG-GAUUAGCCUAAGUCAAAAUAUAUAAAAAACUGUAAAAUCAGAGAGAC
--(((((........(((.(((.(((((((((.....))))))))).)))...)))-((((......))))....)))))......(((......)))...... ( -28.40, z-score =  -2.11, R)
>droSim1.chr3h_random 107918 90 + 1452968
--AAACGCAAAUAAGCGUCGCUGCGCUGCAGGCUAUGCCGGCAGCGCUGCUCUUCGAC-UUAGGCU---AAGAAACCAUUGUAUU--UAGAUCGCCAA------
--..((((......)))).((.(((((((.(((...))).))))))).))........-...(((.---................--......)))..------ ( -28.50, z-score =  -0.47, R)
>droEre2.scaffold_4855 7528 89 - 242605
-------------AGAGCCGCUCCGCUGCUGGCGUAGCUGGCAGCGCAGCUACGCGGUUUUAGGUUUAGCCGAAAUAUACUUAAGAAUGUAUCGCCAGAUAC--
-------------...((.(((.((((((..((...))..)))))).)))...))..((((((((.((.......)).))))))))..(((((....)))))-- ( -30.40, z-score =  -0.69, R)
>droAna3.scaffold_13339 1856681 95 - 4599533
--AGUAAUAUAUUGCUGACGCUCAGCCGCUGCCCUCUGCAGCAGCGCAGUCUUGUAUCGUAAGUUUUAGAAUAAGUAAAAAUUGUAAUGGAAAUUCA-------
--.(..(((((..((((.((((.....(((((.....)))))))))))))..)))))..)...(((((..((((.......))))..))))).....------- ( -21.10, z-score =  -0.34, R)
>droPer1.super_81 267482 90 + 277874
AAGAACACAUAGUUCUGCCGCUCCGCUGCCGGCGUCACUGGCAGCGCAGCUCCGCGGCUUUUGGCUUACAAAAGCCCAAAAAAUU--CAGAA------------
.(((((.....)))))((.(((.(((((((((.....))))))))).)))...))((((((((.....)))))))).........--.....------------ ( -38.00, z-score =  -3.97, R)
>consensus
__AAACACAUAUUACCGCCGCUCCGCUGCUGGCGUAGCCGGCAGCGCAGCUACGCGGCUUUAGGCUUAGAAAAAAUAAAAAUAAUA_UGGAAAGCCA_______
...................(((.(((((((((.....))))))))).)))...................................................... (-18.66 = -18.50 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:33:55 2011