Locus 2756

Sequence ID dm3.chr2L
Location 21,938,057 – 21,938,174
Length 117
Max. P 0.793282
window3789 window3790

overview

Window 9

Location 21,938,057 – 21,938,174
Length 117
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 82.01
Shannon entropy 0.31982
G+C content 0.48358
Mean single sequence MFE -32.99
Consensus MFE -25.00
Energy contribution -26.00
Covariance contribution 1.00
Combinations/Pair 1.07
Mean z-score -1.29
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.21
SVM RNA-class probability 0.594498
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21938057 117 + 23011544
GGACUGAGGGAGGGAAGGUCUACGGGCUUGGGCGGUGUCCUGUUAUGGCCCGCGGAAAAUUGCAGUUGAAAUUAUUGCAUUUAAACAGCACAUUAUCACA-CACAAGCCCAGAGACAC
.................((((..((((((((((.(((......))).))))((.......((((((.......))))))........))...........-...))))))..)))).. ( -34.36, z-score =  -1.03, R)
>droYak2.chr2R 20256079 117 - 21139217
GGACUGGGAAUUGGAAGGGCCACGGGCUUGGGUGGUGUCCUUUUAUGACCCGCGGAAAAUUGCAGUUGAAAUUAUUGCAUUAAAACAGGACAUUAUCACA-CACAAGCCCAGGGACAC
(..((......(((.....))).((((((((((((((((((.((.(((((...)).....((((((.......))))))))).)).)))))))))))...-..))))))).))..).. ( -34.10, z-score =  -1.12, R)
>droSec1.super_28 543659 116 + 873875
GGACUGAGGGAGGGAAGGUCUACGGGCUUGGGCGGUGUCCUGUUAUGGCC-GCGGAAAAUUGCAGUUGAAAUUAUUGCAUUUAAACAGGACAUUAUCACA-CACAAGCCCAGAGACAC
.................((((..(((((((((..((((((((((....(.-...).....((((((.......))))))....))))))))))..))...-..)))))))..)))).. ( -38.00, z-score =  -2.62, R)
>droSim1.chr2L 21508847 117 + 22036055
GGACUGAGGAAGGGAAGGUCUACGGGCUUGGGCGGUGUCCUGUUAUGGCCCGCGGAAAAUUGCAGUUGAAAUUAUUGCAUUUAAACAGGACAUUAUCACA-CACAAGCCCAGAGACAC
.................((((..(((((((((..((((((((((....((...)).....((((((.......))))))....))))))))))..))...-..)))))))..)))).. ( -38.30, z-score =  -2.52, R)
>droPer1.super_5 2936241 105 - 6813705
-------------AAACUGGCAAGGUCCUGCAGGGUGUCCUGUUGUGGCCCGCGGAAAAUUGCAGUGGAAAUUAUUGCAUUUAAACAGGACAUUAUCACAGCACAGACACAAAAACAC
-------------...(((((.....((....))(((((((((((((...))).......(((((((.....)))))))....)))))))))).......)).)))............ ( -26.60, z-score =  -0.21, R)
>dp4.chr4_group1 1329033 105 + 5278887
-------------AAACUGGCAAGGUCCUGCAGGGUGUCCUGUUGUGGCCCGCGGAAAAUUGCAGUGGAAAUUAUUGCAUUUAAACAGGACAUUAUCACAGCACAGACACAAAAACAC
-------------...(((((.....((....))(((((((((((((...))).......(((((((.....)))))))....)))))))))).......)).)))............ ( -26.60, z-score =  -0.21, R)
>consensus
GGACUGAGG_AGGGAAGGGCCACGGGCUUGGGCGGUGUCCUGUUAUGGCCCGCGGAAAAUUGCAGUUGAAAUUAUUGCAUUUAAACAGGACAUUAUCACA_CACAAGCCCAGAGACAC
.......................(((((((((..((((((((((....((...)).....((((((.......))))))....))))))))))..))......)))))))........ (-25.00 = -26.00 +   1.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,938,057 – 21,938,174
Length 117
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 82.01
Shannon entropy 0.31982
G+C content 0.48358
Mean single sequence MFE -30.87
Consensus MFE -21.32
Energy contribution -22.02
Covariance contribution 0.70
Combinations/Pair 1.15
Mean z-score -1.80
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.71
SVM RNA-class probability 0.793282
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21938057 117 - 23011544
GUGUCUCUGGGCUUGUG-UGUGAUAAUGUGCUGUUUAAAUGCAAUAAUUUCAACUGCAAUUUUCCGCGGGCCAUAACAGGACACCGCCCAAGCCCGUAGACCUUCCCUCCCUCAGUCC
..((((.((((((((..-.(.((.(((.(((.(((.((((......)))).))).)))))).)))((((.((......))...)))).)))))))).))))................. ( -34.30, z-score =  -2.41, R)
>droYak2.chr2R 20256079 117 + 21139217
GUGUCCCUGGGCUUGUG-UGUGAUAAUGUCCUGUUUUAAUGCAAUAAUUUCAACUGCAAUUUUCCGCGGGUCAUAAAAGGACACCACCCAAGCCCGUGGCCCUUCCAAUUCCCAGUCC
..(..((((((((((.(-.(((....((((((((......))...........((((........))))........)))))).)))))))))))).))..)................ ( -30.80, z-score =  -1.47, R)
>droSec1.super_28 543659 116 - 873875
GUGUCUCUGGGCUUGUG-UGUGAUAAUGUCCUGUUUAAAUGCAAUAAUUUCAACUGCAAUUUUCCGC-GGCCAUAACAGGACACCGCCCAAGCCCGUAGACCUUCCCUCCCUCAGUCC
..((((.((((((((.(-.(((....(((((((((....(((...((((.(....).))))....))-).....))))))))).)))))))))))).))))................. ( -36.10, z-score =  -4.18, R)
>droSim1.chr2L 21508847 117 - 22036055
GUGUCUCUGGGCUUGUG-UGUGAUAAUGUCCUGUUUAAAUGCAAUAAUUUCAACUGCAAUUUUCCGCGGGCCAUAACAGGACACCGCCCAAGCCCGUAGACCUUCCCUUCCUCAGUCC
..((((.((((((((.(-.(((....(((((((((.((((......))))...((((........)))).....))))))))).)))))))))))).))))................. ( -37.00, z-score =  -3.78, R)
>droPer1.super_5 2936241 105 + 6813705
GUGUUUUUGUGUCUGUGCUGUGAUAAUGUCCUGUUUAAAUGCAAUAAUUUCCACUGCAAUUUUCCGCGGGCCACAACAGGACACCCUGCAGGACCUUGCCAGUUU-------------
......(((.((..((.((((.....(((((((((.((((......))))...((((........)))).....)))))))))....)))).))...)))))...------------- ( -23.50, z-score =   0.53, R)
>dp4.chr4_group1 1329033 105 - 5278887
GUGUUUUUGUGUCUGUGCUGUGAUAAUGUCCUGUUUAAAUGCAAUAAUUUCCACUGCAAUUUUCCGCGGGCCACAACAGGACACCCUGCAGGACCUUGCCAGUUU-------------
......(((.((..((.((((.....(((((((((.((((......))))...((((........)))).....)))))))))....)))).))...)))))...------------- ( -23.50, z-score =   0.53, R)
>consensus
GUGUCUCUGGGCUUGUG_UGUGAUAAUGUCCUGUUUAAAUGCAAUAAUUUCAACUGCAAUUUUCCGCGGGCCAUAACAGGACACCGCCCAAGCCCGUAGACCUUCCCU_CCUCAGUCC
........(((((((....(((....(((((((((.((((......))))...((((........)))).....))))))))).))).)))))))....................... (-21.32 = -22.02 +   0.70)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:57:19 2011