Locus 4164

Sequence ID dm3.chr2R
Location 10,928,665 – 10,928,755
Length 90
Max. P 0.991359
window5709 window5710

overview

Window 9

Location 10,928,665 – 10,928,755
Length 90
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 82.42
Shannon entropy 0.23956
G+C content 0.46740
Mean single sequence MFE -28.93
Consensus MFE -23.82
Energy contribution -24.60
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -2.80
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.47
SVM RNA-class probability 0.991359
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 10928665 90 + 21146708
AUUCGUUCGCAGACCCCUCACCACAGAAAAA--CCGAAAGAUACACCCAUUCAAUUGGGUGUAGAAGAGGGGCACGGAAUAUGGAAUAUUGG
.(((((...(...((((((............--.(....).((((((((......))))))))...))))))....)...)))))....... ( -29.20, z-score =  -3.22, R)
>droSim1.chr2R 9681382 89 + 19596830
AUUCAUUCGGUGCCCCAACCCCACAAAGAAA--CCGAAAGAUACACCCAU-CAAUUGGGUGUAGAAGAGGGGCUCGGAAUAUGGGAUAUUGG
....((((.(.(((((...............--.(....).((((((((.-....)))))))).....))))).).))))............ ( -30.80, z-score =  -2.38, R)
>droSec1.super_1 8438518 84 + 14215200
AUUCAUUCGGUGCCCCCAACCCACAAAAAAAAACAGAAAGAUACACCCAU-CAAUUGGGUGUAGAAGAGGGGCUCGGAAUAUUGG-------
....((((.(.((((((................(.....).((((((((.-....))))))))...).))))).).)))).....------- ( -26.80, z-score =  -2.81, R)
>consensus
AUUCAUUCGGUGCCCCCACCCCACAAAAAAA__CCGAAAGAUACACCCAU_CAAUUGGGUGUAGAAGAGGGGCUCGGAAUAUGGGAUAUUGG
....((((.(.(((((..................(....).((((((((......)))))))).....))))).).))))............ (-23.82 = -24.60 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,928,665 – 10,928,755
Length 90
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 82.42
Shannon entropy 0.23956
G+C content 0.46740
Mean single sequence MFE -28.31
Consensus MFE -19.95
Energy contribution -21.40
Covariance contribution 1.45
Combinations/Pair 1.04
Mean z-score -2.06
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.58
SVM RNA-class probability 0.748696
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 10928665 90 - 21146708
CCAAUAUUCCAUAUUCCGUGCCCCUCUUCUACACCCAAUUGAAUGGGUGUAUCUUUCGG--UUUUUCUGUGGUGAGGGGUCUGCGAACGAAU
.............(((((.(((((((.((((((((((......)))))))).....(((--.....))).)).))))))).)).)))..... ( -28.40, z-score =  -2.42, R)
>droSim1.chr2R 9681382 89 - 19596830
CCAAUAUCCCAUAUUCCGAGCCCCUCUUCUACACCCAAUUG-AUGGGUGUAUCUUUCGG--UUUCUUUGUGGGGUUGGGGCACCGAAUGAAU
((...((((((((....(((((.......((((((((....-.))))))))......))--)))...))))))))..))............. ( -28.92, z-score =  -1.49, R)
>droSec1.super_1 8438518 84 - 14215200
-------CCAAUAUUCCGAGCCCCUCUUCUACACCCAAUUG-AUGGGUGUAUCUUUCUGUUUUUUUUUGUGGGUUGGGGGCACCGAAUGAAU
-------....(((((.(.(((((.....((((((((....-.)))))))).(..((..(........)..))..)))))).).)))))... ( -27.60, z-score =  -2.26, R)
>consensus
CCAAUAUCCCAUAUUCCGAGCCCCUCUUCUACACCCAAUUG_AUGGGUGUAUCUUUCGG__UUUUUUUGUGGGGUGGGGGCACCGAAUGAAU
...........(((((.(.(((((.....((((((((......)))))))).((..(((.......)))..))...))))).).)))))... (-19.95 = -21.40 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:23:59 2011