Locus 7312

Sequence ID dm3.chr3L
Location 13,798,129 – 13,798,194
Length 65
Max. P 0.994847
window10064 window10065

overview

Window 4

Location 13,798,129 – 13,798,194
Length 65
Sequences 4
Columns 65
Reading direction forward
Mean pairwise identity 52.56
Shannon entropy 0.79853
G+C content 0.47333
Mean single sequence MFE -14.73
Consensus MFE -5.90
Energy contribution -6.15
Covariance contribution 0.25
Combinations/Pair 1.46
Mean z-score -1.08
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.893183
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13798129 65 + 24543557
UUUGGUCAAUCGAGCCUUUAAUCGACUCUGCAGUUUCCCCCUACCAAAGGUAAGGAACUCAGAGA
.........((((........))))(((((.((((((..(((.....)))...))))))))))). ( -17.90, z-score =  -1.92, R)
>droSec1.super_43 56432 65 + 327307
UUUGGUUGUUUUGUUUUUCGAAAUUCUCUGCAGUUUUUUCGCACCAGUAGUAAAAAACUCAGAGA
.......((((((.....))))))((((((.((((((((.((.......)))))))))))))))) ( -15.10, z-score =  -2.19, R)
>droAna3.scaffold_13767 795238 55 + 1685616
UUUGGUCCAUCGAGAC--------ACCCUGACGUUUUCCCC--CCUGUGGUAAGAGACUCAGGUU
....(((......)))--------..(((((.(((((...(--(....))...)))))))))).. ( -12.20, z-score =   0.22, R)
>droPer1.super_164 85937 53 + 94152
--------GUUGGUCCUUCGAGACUCUCC---GUUGUUUCCCCCCUGUGGUAAGAG-CACGGAGU
--------...((((......))))((((---((.((((...((....))...)))-))))))). ( -13.70, z-score =  -0.42, R)
>consensus
UUUGGUC_AUCGAGCCUUCGA_A_ACUCUGCAGUUUUCCCCCACCAGUGGUAAGAAACUCAGAGA
.........................(((((.((((((..((.......))...))))))))))). ( -5.90 =  -6.15 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,798,129 – 13,798,194
Length 65
Sequences 4
Columns 65
Reading direction reverse
Mean pairwise identity 52.56
Shannon entropy 0.79853
G+C content 0.47333
Mean single sequence MFE -15.73
Consensus MFE -9.99
Energy contribution -9.92
Covariance contribution -0.06
Combinations/Pair 1.71
Mean z-score -0.95
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.74
SVM RNA-class probability 0.994847
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13798129 65 - 24543557
UCUCUGAGUUCCUUACCUUUGGUAGGGGGAAACUGCAGAGUCGAUUAAAGGCUCGAUUGACCAAA
..(((((((((((((((...))))))))...))).))))(((((((........))))))).... ( -19.70, z-score =  -1.28, R)
>droSec1.super_43 56432 65 - 327307
UCUCUGAGUUUUUUACUACUGGUGCGAAAAAACUGCAGAGAAUUUCGAAAAACAAAACAACCAAA
((((((((((((((..((....))..)))))))).))))))........................ ( -13.30, z-score =  -2.39, R)
>droAna3.scaffold_13767 795238 55 - 1685616
AACCUGAGUCUCUUACCACAGG--GGGGAAAACGUCAGGGU--------GUCUCGAUGGACCAAA
..(((((((.(((..((...))--..)))..)).)))))(.--------((((....)))))... ( -13.70, z-score =   0.78, R)
>droPer1.super_164 85937 53 - 94152
ACUCCGUG-CUCUUACCACAGGGGGGAAACAAC---GGAGAGUCUCGAAGGACCAAC--------
.((((((.-(((((.....)))))(....).))---)))).((((....))))....-------- ( -16.20, z-score =  -0.90, R)
>consensus
ACUCUGAGUCUCUUACCACAGGUGGGAAAAAACUGCAGAGA_U_UCGAAGGACCAAU_GACCAAA
.(((((..(((((((((...)))))))))......)))))......................... ( -9.99 =  -9.92 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:24:30 2011