Locus 5081

Sequence ID dm3.chr2R
Location 17,598,983 – 17,599,094
Length 111
Max. P 0.850231
window6972 window6973

overview

Window 2

Location 17,598,983 – 17,599,094
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.30
Shannon entropy 0.41823
G+C content 0.39211
Mean single sequence MFE -25.15
Consensus MFE -11.93
Energy contribution -12.60
Covariance contribution 0.67
Combinations/Pair 1.18
Mean z-score -1.81
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.00
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr2R 17598983 111 + 21146708
AAAAUAUAAUCGUUUUUGGAAAUGCUUUCUAUUUUUAGAGAACCCGCUUUGGCAAUGGUCCCUCGUGCCAAAAAGCACAAAGGGAAAAA-----GCACA----AACGAUAACCACUUCGA
........(((((((.......(((((((((((.((((((......)))))).)))))(((((.((((......))))..))))).)))-----))).)----))))))........... ( -25.70, z-score =  -1.58, R)
>droAna3.scaffold_13266 10997236 105 + 19884421
------UUAACUGUGUUGGA----CAUCCUGUCCUCAAAUACACCUCU-----ACUGGUGCUAUCUUCAAAAAAGCACAAAACGAAAAAAUCUGAUAUAGCCCAGCUAUAACCACUAUGG
------.....(((((((((----(.....)))).......((((...-----...)))).............))))))................((((((...)))))).......... ( -20.30, z-score =  -2.61, R)
>droEre2.scaffold_4845 11747957 110 + 22589142
AAUAAAUGAUAUUUUUUGGUAGUGCUUUCUAUUUUUAGAAAACCCACUUAGGCAAUGGUCCCUCGUGCCAAAAAGCACAAAGGGAAAA------GCACA----AACGAUAACCACGUCGA
.....................((((((((((....)))))).................(((((.((((......))))..)))))...------)))).----..((((......)))). ( -24.40, z-score =  -1.32, R)
>droYak2.chr2R 9567500 110 - 21139217
AAUAAAUGAUCUUUUUUGGUAGUGCUUUCUAUUUUUAGAGAACCCGCUUUGGCAAUGGUCCCACGUGCCAAAAAGCACAAAGGGAAAA------GCACA----AACGAUAACCACGCCGA
...............(((((.((((((((((((.((((((......)))))).)))))((((..((((......))))...)))))))------)))).----...(.....)..))))) ( -26.80, z-score =  -1.22, R)
>droSec1.super_9 924725 111 + 3197100
AAUAUAUGAUCGUUUUUGGAAAUGCUUUCUAUUUUUAGAGAACCCACUUUGGCAUUGGUCCCUCGUGCCAAAAAGCACUAAGGGAAAAA-----GCACA----AACGAUAACCACUUCGA
........(((((((.((..(((((((((((....)))))..........))))))..(((((.((((......))))..)))))....-----.)).)----))))))........... ( -25.50, z-score =  -1.65, R)
>droSim1.chr2R 16250334 111 + 19596830
AAUAUAUGAUCGUUUUUGGAAAUGUUUUCUAUUUCUAGAGAACCCACUUUGGCAUUGGUCCCUCGUGCCAAAAAGCACUAAGGGAAAAA-----GCACA----AACGAUAACCACUUCGA
........(((((((.(((....((((((((....))))))))))).....((.((..(((((.((((......))))..)))))..))-----))..)----))))))........... ( -28.20, z-score =  -2.45, R)
>consensus
AAUAUAUGAUCGUUUUUGGAAAUGCUUUCUAUUUUUAGAGAACCCACUUUGGCAAUGGUCCCUCGUGCCAAAAAGCACAAAGGGAAAAA_____GCACA____AACGAUAACCACUUCGA
................(((......((((((....)))))).................((((..((((......))))...))))..........................)))...... (-11.93 = -12.60 +   0.67)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,598,983 – 17,599,094
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.30
Shannon entropy 0.41823
G+C content 0.39211
Mean single sequence MFE -29.57
Consensus MFE -15.93
Energy contribution -16.30
Covariance contribution 0.37
Combinations/Pair 1.40
Mean z-score -1.96
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.91
SVM RNA-class probability 0.850231
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17598983 111 - 21146708
UCGAAGUGGUUAUCGUU----UGUGC-----UUUUUCCCUUUGUGCUUUUUGGCACGAGGGACCAUUGCCAAAGCGGGUUCUCUAAAAAUAGAAAGCAUUUCCAAAAACGAUUAUAUUUU
..((((((...((((((----(((((-----(((((.((((((((((....))))))))))(((...((....)).)))...........)))))))))......)))))))..)))))) ( -33.30, z-score =  -2.93, R)
>droAna3.scaffold_13266 10997236 105 - 19884421
CCAUAGUGGUUAUAGCUGGGCUAUAUCAGAUUUUUUCGUUUUGUGCUUUUUUGAAGAUAGCACCAGU-----AGAGGUGUAUUUGAGGACAGGAUG----UCCAACACAGUUAA------
.....(((..((((((...))))))((((((..((((.....(((((.((.....)).)))))....-----.))))...))))))((((.....)----)))..)))......------ ( -25.30, z-score =  -1.00, R)
>droEre2.scaffold_4845 11747957 110 - 22589142
UCGACGUGGUUAUCGUU----UGUGC------UUUUCCCUUUGUGCUUUUUGGCACGAGGGACCAUUGCCUAAGUGGGUUUUCUAAAAAUAGAAAGCACUACCAAAAAAUAUCAUUUAUU
......((((.......----.((((------((((.((((((((((....)))))))))).(((((.....)))))..............)))))))).))))................ ( -31.70, z-score =  -2.90, R)
>droYak2.chr2R 9567500 110 + 21139217
UCGGCGUGGUUAUCGUU----UGUGC------UUUUCCCUUUGUGCUUUUUGGCACGUGGGACCAUUGCCAAAGCGGGUUCUCUAAAAAUAGAAAGCACUACCAAAAAAGAUCAUUUAUU
...(.(((((..(((((----(..((------...((((..((((((....)))))).)))).....))..))))))(((.((((....)))).)))))))))................. ( -27.60, z-score =  -0.71, R)
>droSec1.super_9 924725 111 - 3197100
UCGAAGUGGUUAUCGUU----UGUGC-----UUUUUCCCUUAGUGCUUUUUGGCACGAGGGACCAAUGCCAAAGUGGGUUCUCUAAAAAUAGAAAGCAUUUCCAAAAACGAUCAUAUAUU
........((.((((((----(((((-----((((((((((.(((((....))))))))))).....(((......)))............))))))))......))))))).))..... ( -29.00, z-score =  -1.90, R)
>droSim1.chr2R 16250334 111 - 19596830
UCGAAGUGGUUAUCGUU----UGUGC-----UUUUUCCCUUAGUGCUUUUUGGCACGAGGGACCAAUGCCAAAGUGGGUUCUCUAGAAAUAGAAAACAUUUCCAAAAACGAUCAUAUAUU
(((...(((...(((((----((.((-----....((((((.(((((....))))))))))).....)))))).)))(((.((((....)))).)))....)))....)))......... ( -30.50, z-score =  -2.32, R)
>consensus
UCGAAGUGGUUAUCGUU____UGUGC_____UUUUUCCCUUUGUGCUUUUUGGCACGAGGGACCAUUGCCAAAGUGGGUUCUCUAAAAAUAGAAAGCAUUUCCAAAAAAGAUCAUAUAUU
......(((............................((((((((((....))))))))))................(((.((((....)))).)))....)))................ (-15.93 = -16.30 +   0.37)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:41:29 2011