Locus 4400

Sequence ID dm3.chr2R
Location 12,802,096 – 12,802,216
Length 120
Max. P 0.940320
window6029 window6030

overview

Window 9

Location 12,802,096 – 12,802,216
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.64
Shannon entropy 0.07821
G+C content 0.47653
Mean single sequence MFE -33.26
Consensus MFE -32.52
Energy contribution -32.44
Covariance contribution -0.08
Combinations/Pair 1.05
Mean z-score -1.37
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.94
SVM RNA-class probability 0.858086
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12802096 120 + 21146708
GCCAUUCGUCCUUGUAGGGCUUGCAUCUGCUACAUCUUCAAACAUAUUAAACAUCAGCCACUAUAACAUCAACAGGUUCCCCCGUUGAUGAUGGCUGACCUAAUGAUGUUUCAGCGGGGC
(((....((((.....))))......((((((((((.........((((....(((((((......(((((((.((....)).))))))).)))))))..)))))))))...)))))))) ( -35.40, z-score =  -2.28, R)
>droSim1.chr2R 11538411 119 + 19596830
GCCAUUCGUCCUUGUAGGGCUUGCAUCUGCUACAUCUUCGAGCAUAUUAAACAUCAGCCACUACAACAUCAACAGGUUCCCC-GUUGAUGAUGGCUGACCUAAUGAUGUUCCAGCGGGGC
(((....((((.....))))......(((((........((((((((((....(((((((......(((((((.((....))-))))))).)))))))..)))).)))))).)))))))) ( -36.20, z-score =  -1.76, R)
>droSec1.super_1 10306139 119 + 14215200
GCCAUUUGUCCUUGUAGGGCUUGCAUCUGCUACAUCUUCAAACAUAUUAAACAUCAGCCACUACAACAUCAACAGGUUCCCC-GUUGAUGAUGGCUGACCUAAUGAUGUUCCAGCGGGGC
(((....((((.....))))......((((((((((.........((((....(((((((......(((((((.((....))-))))))).)))))))..)))))))))...)))))))) ( -34.10, z-score =  -1.71, R)
>droYak2.chr2R 2470985 119 - 21139217
GCCAUUCGUUCUUGUAGAGCUUGCAUCUGCUACAUCUUCAGACAUAUUAGACAUCAGCCACUACAACAUCAACAGGUUCCCC-GUGGAUGAUGGCUGACCUAAUGAUGUUCCAGCGGGGC
(((....((((.....))))......((((((((((.........(((((...(((((((......((((.((.((....))-)).)))).))))))).))))))))))...)))))))) ( -31.60, z-score =  -0.45, R)
>droEre2.scaffold_4845 9546212 119 - 22589142
GCCAUUCGUCCUUGUAGGGCUUGCAUCUGCUACAUCUUCAAACAUAUUAAACAUCAACCACUACAACAUCAACAGGUUCCCC-GUUGAUGAUGGCUGACCUAAUGAUGUUCCAGCGGGGU
(((....((((.....))))..((....))...........................((.((..(((((((..(((((..((-(((...)))))..)))))..)))))))..)).))))) ( -29.00, z-score =  -0.64, R)
>consensus
GCCAUUCGUCCUUGUAGGGCUUGCAUCUGCUACAUCUUCAAACAUAUUAAACAUCAGCCACUACAACAUCAACAGGUUCCCC_GUUGAUGAUGGCUGACCUAAUGAUGUUCCAGCGGGGC
(((....((((.....))))......((((((((((.........((((....(((((((......(((((((.((....)).))))))).)))))))..)))))))))...)))))))) (-32.52 = -32.44 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,802,096 – 12,802,216
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.64
Shannon entropy 0.07821
G+C content 0.47653
Mean single sequence MFE -39.28
Consensus MFE -36.54
Energy contribution -36.38
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -2.06
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.46
SVM RNA-class probability 0.940320
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12802096 120 - 21146708
GCCCCGCUGAAACAUCAUUAGGUCAGCCAUCAUCAACGGGGGAACCUGUUGAUGUUAUAGUGGCUGAUGUUUAAUAUGUUUGAAGAUGUAGCAGAUGCAAGCCCUACAAGGACGAAUGGC
(((...(((..(((((.....(((((((((((((((((((....)))))))))).....))))))))).(((((.....))))))))))..)))......(.((.....)).)....))) ( -44.00, z-score =  -3.72, R)
>droSim1.chr2R 11538411 119 - 19596830
GCCCCGCUGGAACAUCAUUAGGUCAGCCAUCAUCAAC-GGGGAACCUGUUGAUGUUGUAGUGGCUGAUGUUUAAUAUGCUCGAAGAUGUAGCAGAUGCAAGCCCUACAAGGACGAAUGGC
(((..(((....((((.....((((((((((((((((-(((...)))))))))).....)))))))))........(((((......).))))))))..)))((.....))......))) ( -39.30, z-score =  -1.70, R)
>droSec1.super_1 10306139 119 - 14215200
GCCCCGCUGGAACAUCAUUAGGUCAGCCAUCAUCAAC-GGGGAACCUGUUGAUGUUGUAGUGGCUGAUGUUUAAUAUGUUUGAAGAUGUAGCAGAUGCAAGCCCUACAAGGACAAAUGGC
(((..(((...(((((.....((((((((((((((((-(((...)))))))))).....))))))))).(((((.....)))))))))).((....)).)))((.....))......))) ( -39.60, z-score =  -2.12, R)
>droYak2.chr2R 2470985 119 + 21139217
GCCCCGCUGGAACAUCAUUAGGUCAGCCAUCAUCCAC-GGGGAACCUGUUGAUGUUGUAGUGGCUGAUGUCUAAUAUGUCUGAAGAUGUAGCAGAUGCAAGCUCUACAAGAACGAAUGGC
(((.(((((.(((((((.(((((...((.((......-)))).))))).))))))).)))))(((..(((((..((((((....))))))..)))))..)))...............))) ( -38.10, z-score =  -1.45, R)
>droEre2.scaffold_4845 9546212 119 + 22589142
ACCCCGCUGGAACAUCAUUAGGUCAGCCAUCAUCAAC-GGGGAACCUGUUGAUGUUGUAGUGGUUGAUGUUUAAUAUGUUUGAAGAUGUAGCAGAUGCAAGCCCUACAAGGACGAAUGGC
...(((((...(((((.....((((((((((((((((-(((...)))))))))).....))))))))).(((((.....)))))))))).((....)).)))((.....))......)). ( -35.40, z-score =  -1.29, R)
>consensus
GCCCCGCUGGAACAUCAUUAGGUCAGCCAUCAUCAAC_GGGGAACCUGUUGAUGUUGUAGUGGCUGAUGUUUAAUAUGUUUGAAGAUGUAGCAGAUGCAAGCCCUACAAGGACGAAUGGC
(((..(((.((((((.(((((((((((((((((((((.((....)).))))))).....)))))))))..))))))))))).....((((.....)))))))((.....))......))) (-36.54 = -36.38 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:28:27 2011