Locus 12498

Sequence ID dm3.chrX
Location 586,050 – 586,169
Length 119
Max. P 0.980291
window17188 window17189

overview

Window 8

Location 586,050 – 586,169
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.65
Shannon entropy 0.12489
G+C content 0.35013
Mean single sequence MFE -33.50
Consensus MFE -25.00
Energy contribution -25.04
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -3.25
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.04
SVM RNA-class probability 0.980291
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 586050 119 + 22422827
AUUCGGACGAUCCCGAAAUAGGGCAAAUUAAACAUGAGAAGAUGGUUCGUUUUGAGUGGCCUUAAAACGGUUUUAGCAAGUUUUGCGAUAGUUGCUAAACUUUCUGAAGUGUUUAAAAU-
.(((((......)))))..........((((((((....(((.(((((((((((((....))))))))))..(((((((.(........).)))))))))).)))...))))))))...- ( -32.20, z-score =  -2.33, R)
>droSim1.chrX 471277 119 + 17042790
AUUUGGACGAUCCCAAAAUGAAGCAAAUUAAACAUGAGAAGAUGGUUCGUUUUGAGUGGCCUUAAAACGGUUUUAGCAAGUUUUGCGAUAGUUGCUAAACUUGCUGAAGUGUUUAAAAU-
.(((((......)))))..........((((((((...........((((((((((....)))))))))).((((((((((((.((((...)))).))))))))))))))))))))...- ( -36.10, z-score =  -4.05, R)
>droSec1.super_10 433331 119 + 3036183
AUUUGUACGAUCCCGAAAUGAAGCAAAUUAAACAUGAGAAGAUGGUUCGUUUUGAGUGGCCUUAAAACGGUUUUAGCAAGUUUUGCGAUAGUUGCUAAACUUGCUGAAGUGUUUAAAAU-
.(((((................)))))((((((((...........((((((((((....)))))))))).((((((((((((.((((...)))).))))))))))))))))))))...- ( -32.49, z-score =  -3.07, R)
>droYak2.chrX 511120 120 + 21770863
AGUUUUACGAUCCCGAAAUGAAGCAAAUUAAACAUGAGUAGAUGCUUCGUUUUGAGUGGCCUUAAAACGGUUUUAGCAAGUUUAGCGUUAGUUGCUAAACUUUCUAAAGUGUUUAAAAAU
.((((((((....))...))))))...((((((((...((((((((((((((((((....))))))))))....))))(((((((((.....))))))))).))))..)))))))).... ( -35.00, z-score =  -4.01, R)
>droEre2.scaffold_4644 549462 120 + 2521924
AGUUUUACGAUCCCGAAAUGAAGCAAUUUAAACAUGAGAAGAUGGUUCGUUUUGAGUGGCCUUAAAACGGUUUUAGCAAGUUUAGCGUUAGUUGCUAAACUUUCUGAAGUGUUAAAAAAU
.((((((.(..(((((((((((.((.(((........)))..)).))))))))).).)..).))))))..((((((.((((((((((.....)))))))))).))))))........... ( -31.70, z-score =  -2.79, R)
>consensus
AUUUGUACGAUCCCGAAAUGAAGCAAAUUAAACAUGAGAAGAUGGUUCGUUUUGAGUGGCCUUAAAACGGUUUUAGCAAGUUUUGCGAUAGUUGCUAAACUUUCUGAAGUGUUUAAAAU_
...........................((((((((...........((((((((((....)))))))))).(((((.((((((.(((.....))).)))))).))))))))))))).... (-25.00 = -25.04 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 586,050 – 586,169
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.65
Shannon entropy 0.12489
G+C content 0.35013
Mean single sequence MFE -23.96
Consensus MFE -15.98
Energy contribution -16.18
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.95
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.06
SVM RNA-class probability 0.882643
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 586050 119 - 22422827
-AUUUUAAACACUUCAGAAAGUUUAGCAACUAUCGCAAAACUUGCUAAAACCGUUUUAAGGCCACUCAAAACGAACCAUCUUCUCAUGUUUAAUUUGCCCUAUUUCGGGAUCGUCCGAAU
-...(((((((....((((..((((((((............))))))))..((((((.((....)).)))))).......))))..)))))))..........((((((....)))))). ( -22.40, z-score =  -2.13, R)
>droSim1.chrX 471277 119 - 17042790
-AUUUUAAACACUUCAGCAAGUUUAGCAACUAUCGCAAAACUUGCUAAAACCGUUUUAAGGCCACUCAAAACGAACCAUCUUCUCAUGUUUAAUUUGCUUCAUUUUGGGAUCGUCCAAAU
-...(((((((....(((((((((.((.......)).))))))))).....((((((.((....)).)))))).............)))))))..........((((((....)))))). ( -26.90, z-score =  -4.20, R)
>droSec1.super_10 433331 119 - 3036183
-AUUUUAAACACUUCAGCAAGUUUAGCAACUAUCGCAAAACUUGCUAAAACCGUUUUAAGGCCACUCAAAACGAACCAUCUUCUCAUGUUUAAUUUGCUUCAUUUCGGGAUCGUACAAAU
-...(((((((....(((((((((.((.......)).))))))))).....((((((.((....)).)))))).............)))))))........................... ( -23.20, z-score =  -3.16, R)
>droYak2.chrX 511120 120 - 21770863
AUUUUUAAACACUUUAGAAAGUUUAGCAACUAACGCUAAACUUGCUAAAACCGUUUUAAGGCCACUCAAAACGAAGCAUCUACUCAUGUUUAAUUUGCUUCAUUUCGGGAUCGUAAAACU
........((..(((((.(((((((((.......))))))))).))))).(((((((.((....)).)))))((((((...((....))......)))))).....))....))...... ( -28.20, z-score =  -3.97, R)
>droEre2.scaffold_4644 549462 120 - 2521924
AUUUUUUAACACUUCAGAAAGUUUAGCAACUAACGCUAAACUUGCUAAAACCGUUUUAAGGCCACUCAAAACGAACCAUCUUCUCAUGUUUAAAUUGCUUCAUUUCGGGAUCGUAAAACU
...............((.(((((((((.......))))))))).)).....((((((.((....)).)))))).((.(((((...(((............)))...))))).))...... ( -19.10, z-score =  -1.32, R)
>consensus
_AUUUUAAACACUUCAGAAAGUUUAGCAACUAUCGCAAAACUUGCUAAAACCGUUUUAAGGCCACUCAAAACGAACCAUCUUCUCAUGUUUAAUUUGCUUCAUUUCGGGAUCGUACAAAU
....(((((((....((.((((((.((.......)).)))))).)).....((((((.((....)).)))))).............)))))))........................... (-15.98 = -16.18 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:03:27 2011