Locus 13757

Sequence ID dm3.chrX
Location 8,914,360 – 8,914,454
Length 94
Max. P 0.999279
window18925 window18926

overview

Window 5

Location 8,914,360 – 8,914,454
Length 94
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 82.39
Shannon entropy 0.28632
G+C content 0.43132
Mean single sequence MFE -25.48
Consensus MFE -20.61
Energy contribution -21.30
Covariance contribution 0.69
Combinations/Pair 1.08
Mean z-score -3.46
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.34
SVM RNA-class probability 0.998379
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 8914360 94 + 22422827
GUUAUUGUUUCUGCCAACCGUGCGUAUGAGCAAUAUUAUUUCGAAUCGUAAAAAUUACUCAUACGCCGCGUUGGCCACAACAACUGAAAGCGUG
(((.((((....((((((((.(((((((((.(((.((((........))))..))).))))))))))).)))))).)))).))).......... ( -29.20, z-score =  -3.64, R)
>droYak2.chrX 9372227 89 - 21770863
AAUUUCGGUUCUGCCAACCAUGCGUAUGAGCAAUAUUAUUUCGAAUUGCAAAAAAUACGCAUACGCCUCGUUGGCCACAACAACUACUG-----
.......(((..((((((...(((((((.(((((..........)))))..........)))))))...))))))...)))........----- ( -21.20, z-score =  -2.38, R)
>droSim1.chrX_random 2621009 78 + 5698898
--------UUCUGCCAACCGUGCGUAUGAGCAAUAUUAUUUCGAAUCGUAAAAAAUACUCAUACGCCGCGUUGGCCACAAC---UCGUG-----
--------....((((((((.(((((((((...((((.(((((...)).))).))))))))))))))).))))))(((...---..)))----- ( -26.60, z-score =  -4.79, R)
>droSec1.super_34 276927 85 + 457129
----UUGGUUCUGCCAACUGUGCGUAUGAGCAAUAUUAUUUCGAAUCGUAAAAAAUACUCAUACGCCGCGUUGGCCACAACAACUCGUG-----
----...(((..((((((((.(((((((((...((((.(((((...)).))).))))))))))))))).))))))...)))........----- ( -24.90, z-score =  -3.04, R)
>consensus
____UUGGUUCUGCCAACCGUGCGUAUGAGCAAUAUUAUUUCGAAUCGUAAAAAAUACUCAUACGCCGCGUUGGCCACAACAACUCGUG_____
............((((((((.(((((((((...((((.(((((...)).))).))))))))))))))).))))))................... (-20.61 = -21.30 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 8,914,360 – 8,914,454
Length 94
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 82.39
Shannon entropy 0.28632
G+C content 0.43132
Mean single sequence MFE -31.35
Consensus MFE -25.60
Energy contribution -25.85
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -4.10
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.76
SVM RNA-class probability 0.999279
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 8914360 94 - 22422827
CACGCUUUCAGUUGUUGUGGCCAACGCGGCGUAUGAGUAAUUUUUACGAUUCGAAAUAAUAUUGCUCAUACGCACGGUUGGCAGAAACAAUAAC
..........((((((((.((((((.(((((((((((((((.(((.((...)))))....))))))))))))).))))))))....)))))))) ( -38.70, z-score =  -6.16, R)
>droYak2.chrX 9372227 89 + 21770863
-----CAGUAGUUGUUGUGGCCAACGAGGCGUAUGCGUAUUUUUUGCAAUUCGAAAUAAUAUUGCUCAUACGCAUGGUUGGCAGAACCGAAAUU
-----........(((.((.(((((.(.(((((((.(((..(((((.....)))))......))).))))))).).))))))).)))....... ( -25.50, z-score =  -1.62, R)
>droSim1.chrX_random 2621009 78 - 5698898
-----CACGA---GUUGUGGCCAACGCGGCGUAUGAGUAUUUUUUACGAUUCGAAAUAAUAUUGCUCAUACGCACGGUUGGCAGAA--------
-----(((..---...)))((((((.(((((((((((((.......................))))))))))).))))))))....-------- ( -30.30, z-score =  -4.43, R)
>droSec1.super_34 276927 85 - 457129
-----CACGAGUUGUUGUGGCCAACGCGGCGUAUGAGUAUUUUUUACGAUUCGAAAUAAUAUUGCUCAUACGCACAGUUGGCAGAACCAA----
-----(((((....)))))((((((...(((((((((((.......................)))))))))))...))))))........---- ( -30.90, z-score =  -4.17, R)
>consensus
_____CACGAGUUGUUGUGGCCAACGCGGCGUAUGAGUAUUUUUUACGAUUCGAAAUAAUAUUGCUCAUACGCACGGUUGGCAGAACCAA____
...................((((((...(((((((((((.......................)))))))))))...))))))............ (-25.60 = -25.85 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:27:13 2011