Locus 10929

Sequence ID dm3.chr3R
Location 17,551,656 – 17,551,755
Length 99
Max. P 0.979966
window15022 window15023

overview

Window 2

Location 17,551,656 – 17,551,755
Length 99
Sequences 7
Columns 101
Reading direction forward
Mean pairwise identity 74.48
Shannon entropy 0.51830
G+C content 0.47110
Mean single sequence MFE -28.54
Consensus MFE -17.12
Energy contribution -17.60
Covariance contribution 0.48
Combinations/Pair 1.39
Mean z-score -1.83
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.04
SVM RNA-class probability 0.979966
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17551656 99 + 27905053
CGGGCAUUUUCAAGUCGGAAAACUCGCAUAUGGCGUGUAAACAAU--GUUUCUUUUUAGUAACUUCCAUUGUUUGGCCCUGGCUUCCGGGGCCACUCGCAG
((((..(((((......)))))))))......(((.(((((((((--(..................))))))))((((((((...)))))))))).))).. ( -30.67, z-score =  -2.19, R)
>droPer1.super_3 6760826 82 + 7375914
---------------CGGGUAUCCCAUA---GUCGAGCUAUCGUCUGGAAUGCCUCCAUGUUUCCCCAUUGUUUAGACCUGGCUUCCGGGGC-ACUUGUGA
---------------(((((..(((..(---(.(((....))).))((((.(((.....((((...........))))..))))))))))..-)))))... ( -22.70, z-score =   0.06, R)
>droAna3.scaffold_13340 18121773 98 - 23697760
-UUACAUCUUCAAGUUAUACAUCUUAAAAAUAGCGUGCUAACUUUUUGUAUUUUUUUUGUUACUU--AUUUUUUAGCCCUGGCUUCCGGGGCCAUUGGCAG
-............(((((...........))))).((((((......(((..........)))..--........(((((((...)))))))..)))))). ( -18.40, z-score =  -0.97, R)
>droEre2.scaffold_4770 13633657 99 - 17746568
CGGGUAUUUUCAAGUCGGAAAACUCGCAUAUGGCGUGUAAACAAU--GUUUCUUCGUAGUUACUUCCAUUGUUUGGCCCUGGCUUCCGGGGCCAUUCGCAG
.((((.(((((.....)))))))))((..((((...((((...((--(......)))..))))..)))).(..(((((((((...)))))))))..))).. ( -31.80, z-score =  -2.69, R)
>droYak2.chr3R 6388661 99 + 28832112
UGGGUAUUUUCAAGUCGGAAAACUCGCAUAUGGCGUGUAAACAAU--GUUUCUUAUUAGUUACUUCCAUUGUUUGGCCCUGGCUUCCGGGGCCAUUCGCAG
.((((.(((((.....)))))))))((..((((...((((..(((--(.....))))..))))..)))).(..(((((((((...)))))))))..))).. ( -32.20, z-score =  -2.89, R)
>droSec1.super_6 418169 99 - 4358794
UGGGCAUUUUCGAGUCGGAAAACUCGCAUGUGGCGUGUAAACAAU--GUUUCUUUUUAGUAACUUCCAUUGUUUGGCCCUGGCUUCCGGGGCCACUCGCAG
....(((...(((((......)))))...)))(((.(((((((((--(..................))))))))((((((((...)))))))))).))).. ( -33.37, z-score =  -2.30, R)
>droSim1.chr3R 23600310 99 - 27517382
CGGGCAUUUUCAAGUCGGAAAACUCGCAUGUGGCGUGUAAACAAU--GUUUCUUUUUAGUAACUUCCAUUGUUUGGCCCUGGCUUCCGGGGCCACUCGCAG
((((..(((((......)))))))))......(((.(((((((((--(..................))))))))((((((((...)))))))))).))).. ( -30.67, z-score =  -1.82, R)
>consensus
CGGGCAUUUUCAAGUCGGAAAACUCGCAUAUGGCGUGUAAACAAU__GUUUCUUUUUAGUUACUUCCAUUGUUUGGCCCUGGCUUCCGGGGCCACUCGCAG
................(((..((.(((.....))).)).........(((.((....)).))).)))...(..(((((((((...)))))))))..).... (-17.12 = -17.60 +   0.48)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,551,656 – 17,551,755
Length 99
Sequences 7
Columns 101
Reading direction reverse
Mean pairwise identity 74.48
Shannon entropy 0.51830
G+C content 0.47110
Mean single sequence MFE -25.12
Consensus MFE -12.92
Energy contribution -13.74
Covariance contribution 0.82
Combinations/Pair 1.29
Mean z-score -1.59
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.95
SVM RNA-class probability 0.859315
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17551656 99 - 27905053
CUGCGAGUGGCCCCGGAAGCCAGGGCCAAACAAUGGAAGUUACUAAAAAGAAAC--AUUGUUUACACGCCAUAUGCGAGUUUUCCGACUUGAAAAUGCCCG
..(((.(((((((.((...)).)))))((((((((..................)--))))))))).)))(((...((((((....))))))...))).... ( -27.47, z-score =  -1.89, R)
>droPer1.super_3 6760826 82 - 7375914
UCACAAGU-GCCCCGGAAGCCAGGUCUAAACAAUGGGGAAACAUGGAGGCAUUCCAGACGAUAGCUCGAC---UAUGGGAUACCCG---------------
......((-(.((((((((((....(((.....)))(....).....))).))))((.(((....))).)---)..))).)))...--------------- ( -19.70, z-score =   0.42, R)
>droAna3.scaffold_13340 18121773 98 + 23697760
CUGCCAAUGGCCCCGGAAGCCAGGGCUAAAAAAU--AAGUAACAAAAAAAAUACAAAAAGUUAGCACGCUAUUUUUAAGAUGUAUAACUUGAAGAUGUAA-
.(((...((((((.((...)).))))))......--...((((................))))))).((.(((((((((........)))))))))))..- ( -18.29, z-score =  -0.94, R)
>droEre2.scaffold_4770 13633657 99 + 17746568
CUGCGAAUGGCCCCGGAAGCCAGGGCCAAACAAUGGAAGUAACUACGAAGAAAC--AUUGUUUACACGCCAUAUGCGAGUUUUCCGACUUGAAAAUACCCG
..(((...(((((.((...)).)))))((((((((..................)--)))))))...)))..(((.((((((....))))))...))).... ( -26.07, z-score =  -2.17, R)
>droYak2.chr3R 6388661 99 - 28832112
CUGCGAAUGGCCCCGGAAGCCAGGGCCAAACAAUGGAAGUAACUAAUAAGAAAC--AUUGUUUACACGCCAUAUGCGAGUUUUCCGACUUGAAAAUACCCA
..(((...(((((.((...)).)))))((((((((..................)--)))))))...)))..(((.((((((....))))))...))).... ( -26.07, z-score =  -2.19, R)
>droSec1.super_6 418169 99 + 4358794
CUGCGAGUGGCCCCGGAAGCCAGGGCCAAACAAUGGAAGUUACUAAAAAGAAAC--AUUGUUUACACGCCACAUGCGAGUUUUCCGACUCGAAAAUGCCCA
..(((.(((((((.((...)).)))))((((((((..................)--))))))))).)))..(((.((((((....))))))...))).... ( -30.17, z-score =  -2.44, R)
>droSim1.chr3R 23600310 99 + 27517382
CUGCGAGUGGCCCCGGAAGCCAGGGCCAAACAAUGGAAGUUACUAAAAAGAAAC--AUUGUUUACACGCCACAUGCGAGUUUUCCGACUUGAAAAUGCCCG
..(((.(((((((.((...)).)))))((((((((..................)--))))))))).)))..(((.((((((....))))))...))).... ( -28.07, z-score =  -1.92, R)
>consensus
CUGCGAGUGGCCCCGGAAGCCAGGGCCAAACAAUGGAAGUAACUAAAAAGAAAC__AUUGUUUACACGCCAUAUGCGAGUUUUCCGACUUGAAAAUGCCCG
.......((((((.((...)).)))))).....((((((...........((((.....))))...(((.....)))...))))))............... (-12.92 = -13.74 +   0.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:33:13 2011