Locus 13329

Sequence ID dm3.chrX
Location 5,875,055 – 5,875,105
Length 50
Max. P 0.993464
window18348 window18349

overview

Window 8

Location 5,875,055 – 5,875,105
Length 50
Sequences 3
Columns 50
Reading direction forward
Mean pairwise identity 80.00
Shannon entropy 0.28379
G+C content 0.39333
Mean single sequence MFE -8.11
Consensus MFE -7.23
Energy contribution -6.57
Covariance contribution -0.66
Combinations/Pair 1.27
Mean z-score -1.61
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.37
SVM RNA-class probability 0.932857
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5875055 50 + 22422827
ACACGCAGGCACAGUAGCAUUCAAAACUAUAGUUACUACGCAGAACAUAU
........((..((((((.............))))))..))......... (  -6.12, z-score =  -1.10, R)
>droEre2.scaffold_4690 3212582 50 + 18748788
UCACGUAGGCACAGUGGCAUUCAGAACCAUAGUUACUACGCAAAACAUAU
...(((((..((.((((.........)))).))..))))).......... ( -10.40, z-score =  -2.78, R)
>droYak2.chrX 14728174 50 + 21770863
GUAUGUGGCCACAGUAGCAUUCACUACUAUAGUUACCAAACAAAACAUAU
((..(((((...(((((......)))))...)))))...))......... (  -7.80, z-score =  -0.96, R)
>consensus
ACACGUAGGCACAGUAGCAUUCAAAACUAUAGUUACUACGCAAAACAUAU
...(((((..((.((((.........)))).))..))))).......... ( -7.23 =  -6.57 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 5,875,055 – 5,875,105
Length 50
Sequences 3
Columns 50
Reading direction reverse
Mean pairwise identity 80.00
Shannon entropy 0.28379
G+C content 0.39333
Mean single sequence MFE -13.60
Consensus MFE -13.30
Energy contribution -11.87
Covariance contribution -1.44
Combinations/Pair 1.38
Mean z-score -2.24
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.62
SVM RNA-class probability 0.993464
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5875055 50 - 22422827
AUAUGUUCUGCGUAGUAACUAUAGUUUUGAAUGCUACUGUGCCUGCGUGU
.........((((((..((..((((.......))))..))..)))))).. ( -12.10, z-score =  -1.73, R)
>droEre2.scaffold_4690 3212582 50 - 18748788
AUAUGUUUUGCGUAGUAACUAUGGUUCUGAAUGCCACUGUGCCUACGUGA
.......(..(((((..((..((((.......))))..))..)))))..) ( -14.80, z-score =  -3.00, R)
>droYak2.chrX 14728174 50 - 21770863
AUAUGUUUUGUUUGGUAACUAUAGUAGUGAAUGCUACUGUGGCCACAUAC
........(((.(((...((((((((((....))))))))))))).))). ( -13.90, z-score =  -1.98, R)
>consensus
AUAUGUUUUGCGUAGUAACUAUAGUUCUGAAUGCUACUGUGCCUACGUGA
........(((((((..((..((((.......))))..))..))))))). (-13.30 = -11.87 +  -1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:19:16 2011