Locus 2858

Sequence ID dm3.chr2RHet
Location 756,903 – 756,954
Length 51
Max. P 0.966833
window3941 window3942

overview

Window 1

Location 756,903 – 756,954
Length 51
Sequences 3
Columns 51
Reading direction forward
Mean pairwise identity 68.63
Shannon entropy 0.44842
G+C content 0.41412
Mean single sequence MFE -12.17
Consensus MFE -8.91
Energy contribution -8.37
Covariance contribution -0.55
Combinations/Pair 1.45
Mean z-score -1.67
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.77
SVM RNA-class probability 0.966833
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 756903 51 + 3288761
CCUCUCUAAUCACCGGCCUUGUGGCUCGGCAAUUAUGUCAAUGAUAAGAUA
....(((.((((..((((....)))).((((....))))..)))).))).. ( -12.20, z-score =  -1.60, R)
>droYak2.chr2L 21373878 51 + 22324452
CCUCCCUAAUCGCUGGCCUUGUGGCUUAGUUAUUAUAACAAUGAUAGGCAA
...........(((((((....))))....((((((....))))))))).. (  -9.60, z-score =  -0.03, R)
>droPer1.super_1039 3446 50 + 6997
UCUCUCUUAUCACUGGCCUUGUGGUACAGUGGU-AUAGAAUUAAUAAUUCA
..(((..(((((((((((....))).)))))))-).)))............ ( -14.70, z-score =  -3.39, R)
>consensus
CCUCUCUAAUCACUGGCCUUGUGGCUCAGUAAUUAUAACAAUGAUAAGAAA
......((((.(((((((....))).)))).))))................ ( -8.91 =  -8.37 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 756,903 – 756,954
Length 51
Sequences 3
Columns 51
Reading direction reverse
Mean pairwise identity 68.63
Shannon entropy 0.44842
G+C content 0.41412
Mean single sequence MFE -10.90
Consensus MFE -6.83
Energy contribution -8.17
Covariance contribution 1.34
Combinations/Pair 1.25
Mean z-score -1.58
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.892562
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 756903 51 - 3288761
UAUCUUAUCAUUGACAUAAUUGCCGAGCCACAAGGCCGGUGAUUAGAGAGG
................((((..(((.(((....))))))..))))...... ( -15.60, z-score =  -3.24, R)
>droYak2.chr2L 21373878 51 - 22324452
UUGCCUAUCAUUGUUAUAAUAACUAAGCCACAAGGCCAGCGAUUAGGGAGG
((.((((((...((((...))))...(((....)))....)).)))).)). (  -8.70, z-score =   0.10, R)
>droPer1.super_1039 3446 50 - 6997
UGAAUUAUUAAUUCUAU-ACCACUGUACCACAAGGCCAGUGAUAAGAGAGA
...........((((..-..(((((..((....)).))))).....)))). (  -8.40, z-score =  -1.61, R)
>consensus
UAACUUAUCAUUGAUAUAAUAACUGAGCCACAAGGCCAGUGAUUAGAGAGG
................(((((((((.(((....))))))))))))...... ( -6.83 =  -8.17 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:59:22 2011