Locus 8474

Sequence ID dm3.chr3L
Location 23,231,303 – 23,231,354
Length 51
Max. P 0.994031
window11635 window11636

overview

Window 5

Location 23,231,303 – 23,231,354
Length 51
Sequences 3
Columns 53
Reading direction forward
Mean pairwise identity 56.69
Shannon entropy 0.62825
G+C content 0.32889
Mean single sequence MFE -10.70
Consensus MFE -9.82
Energy contribution -8.27
Covariance contribution -1.55
Combinations/Pair 1.50
Mean z-score -1.60
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.66
SVM RNA-class probability 0.994031
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 23231303 51 + 24543557
UGUUGAGCUAAUAAGCCUUUUUAUUAGCCUUUUGCAAAAUAAGAGACGAUU--
.((((.(((((((((....)))))))))((((((.....)))))).)))).-- (  -9.90, z-score =  -1.77, R)
>droAna3.scaffold_13250 1155462 53 + 3535662
UGUUGAGCUAUUAAUGGUUUUUAAUAGCGGCCAAACGAAUUAAAUUCCACAGU
(((.((((((((((......))))))))(......).........)).))).. (  -9.40, z-score =  -1.06, R)
>droVir3.scaffold_12958 668084 51 - 3547706
UGUUGUGUUGCUAAUGUUUUUUAGCAACUGUUUUUCAAACUACAGCCAAGU--
.(((((((((((((......)))))))).(((.....))).))))).....-- ( -12.80, z-score =  -1.98, R)
>consensus
UGUUGAGCUAAUAAUGCUUUUUAAUAGCCGUUUAACAAAUUAAAGACAACU__
......((((((((......))))))))......................... ( -9.82 =  -8.27 +  -1.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 23,231,303 – 23,231,354
Length 51
Sequences 3
Columns 53
Reading direction reverse
Mean pairwise identity 56.69
Shannon entropy 0.62825
G+C content 0.32889
Mean single sequence MFE -9.07
Consensus MFE -9.69
Energy contribution -8.13
Covariance contribution -1.55
Combinations/Pair 1.50
Mean z-score -1.22
Structure conservation index 1.07
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.73
SVM RNA-class probability 0.963706
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 23231303 51 - 24543557
--AAUCGUCUCUUAUUUUGCAAAAGGCUAAUAAAAAGGCUUAUUAGCUCAACA
--......................(((((((((......)))))))))..... (  -8.10, z-score =  -1.33, R)
>droAna3.scaffold_13250 1155462 53 - 3535662
ACUGUGGAAUUUAAUUCGUUUGGCCGCUAUUAAAAACCAUUAAUAGCUCAACA
...((.((((.......)))).)).((((((((......))))))))...... (  -8.90, z-score =  -1.25, R)
>droVir3.scaffold_12958 668084 51 + 3547706
--ACUUGGCUGUAGUUUGAAAAACAGUUGCUAAAAAACAUUAGCAACACAACA
--.....(.(((.(((.....))).((((((((......))))))))))).). ( -10.20, z-score =  -1.09, R)
>consensus
__AAUCGACUCUAAUUUGAAAAACAGCUAAUAAAAAACAUUAAUAGCUCAACA
.........................((((((((......))))))))...... ( -9.69 =  -8.13 +  -1.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:46:15 2011