Locus 12664

Sequence ID dm3.chrX
Location 1,532,602 – 1,532,713
Length 111
Max. P 0.728649
window17411 window17412

overview

Window 1

Location 1,532,602 – 1,532,704
Length 102
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 77.27
Shannon entropy 0.39035
G+C content 0.53484
Mean single sequence MFE -32.36
Consensus MFE -20.68
Energy contribution -21.20
Covariance contribution 0.52
Combinations/Pair 1.25
Mean z-score -1.29
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.508662
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1532602 102 + 22422827
GCUUCAGCUCAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU---CUAUCACAAGUUUCGCGCCACACCAGUUGCGGUGUGUGUGUUCUGCAUGCGGUCAGGCCGC
((....))......(((.((((((..(((..(((.......---))).)))..((...((((((((((......)))))).))))...)).))))))..)))... ( -32.80, z-score =  -0.76, R)
>droSec1.super_10 1338342 102 + 3036183
GCUCCAGCUCAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU---CUAUCACAAGUUUCGCACCACACCAGUUGCGGUGUGUGUGUUCUGCGUGCGGUCAGGCCGC
((....))...((((((.(((((((((((..(((.......---))).))).......((((((((((......)))))).)))))))))).)))).)))).... ( -35.80, z-score =  -1.86, R)
>droYak2.chrX 1385264 92 + 21770863
----CAGCUCAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU---CUAUCACAAGUUUCGCACCACACCAGUUGCGGUGUGUGUGCU------GCGGUCAGGCCGC
----..........(((.((((((..(((..(((.......---))).))).......((((((((((......)))))).)))))------)))))..)))... ( -33.00, z-score =  -1.96, R)
>droEre2.scaffold_4644 1517223 92 + 2521924
----CAGCUCAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU---CUAUCACAAGUUUCGCGCCACACCAGUUGCGGUGUGUGUGCU------GCGGUCAGGCCGC
----..........(((.((((((..(((..(((.......---))).))).......((((((((((......)))))).)))))------)))))..)))... ( -32.60, z-score =  -1.49, R)
>droGri2.scaffold_15081 3680413 94 + 4274704
----CAGCUUG---GGCAGCAGCAG--UGUUUAGCAAAAAUGCACUGUUUUUGAAUAUGUGGCAAAC-AUUUUAAUUGCCGCUGUUAUCC-UGCGGUUAGGCCAC
----..(((((---(.(.(((((((--(((...........))))))......((((.(((((((..-.......)))))))))))...)-)))).))))))... ( -27.60, z-score =  -0.39, R)
>consensus
____CAGCUCAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU___CUAUCACAAGUUUCGCGCCACACCAGUUGCGGUGUGUGUGUU_U_C_UGCGGUCAGGCCGC
..............(((.(((((...(((..(((..........))).))).......((((((((((......)))))).)))).......)))))..)))... (-20.68 = -21.20 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,532,611 – 1,532,713
Length 102
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 78.61
Shannon entropy 0.37255
G+C content 0.51506
Mean single sequence MFE -31.98
Consensus MFE -20.68
Energy contribution -21.20
Covariance contribution 0.52
Combinations/Pair 1.25
Mean z-score -1.59
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.52
SVM RNA-class probability 0.728649
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1532611 102 + 22422827
CAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU---CUAUCACAAGUUUCGCGCCACACCAGUUGCGGUGUGUGUGUUCUGCAUGCGGUCAGGCCGCAACAAUCCG
............((((((((..(((.......---))).))).......((((((((((......)))))).))))))))).(((((.....)))))........ ( -32.30, z-score =  -1.26, R)
>droSec1.super_10 1338351 102 + 3036183
CAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU---CUAUCACAAGUUUCGCACCACACCAGUUGCGGUGUGUGUGUUCUGCGUGCGGUCAGGCCGCAACAAUCCG
..((((((.(((((((((((..(((.......---))).))).......((((((((((......)))))).)))))))))).)))).))))............. ( -35.10, z-score =  -2.27, R)
>droYak2.chrX 1385269 95 + 21770863
CAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU---CUAUCACAAGUUUCGCACCACACCAGUUGCGGUGUGUGUGCU------GCGGUCAGGCCGCAACAAUCC-
.....(((.((((((..(((..(((.......---))).))).......((((((((((......)))))).)))))------)))))..)))...........- ( -33.00, z-score =  -2.44, R)
>droEre2.scaffold_4644 1517228 96 + 2521924
CAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU---CUAUCACAAGUUUCGCGCCACACCAGUUGCGGUGUGUGUGCU------GCGGUCAGGCCGCAACAAUUCG
.....(((.((((((..(((..(((.......---))).))).......((((((((((......)))))).)))))------)))))..)))............ ( -32.60, z-score =  -1.73, R)
>droGri2.scaffold_15081 3680418 98 + 4274704
---UGGGCAGCAGCAG--UGUUUAGCAAAAAUGCACUGUUUUUGAAUAUGUGGCAAAC-AUUUUAAUUGCCGCUGUUAU-CCUGCGGUUAGGCCACAACAAUUUG
---((..(((.(((((--(((...........)))))))).)))..))((((((....-.........(((((......-...)))))...))))))........ ( -26.89, z-score =  -0.27, R)
>consensus
CAUCUGCCAGCCGCAGAGUGUUUAGCAAAAUU___CUAUCACAAGUUUCGCGCCACACCAGUUGCGGUGUGUGUGUU_U_C_UGCGGUCAGGCCGCAACAAUCCG
.....(((.(((((...(((..(((..........))).))).......((((((((((......)))))).)))).......)))))..)))............ (-20.68 = -21.20 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:06:30 2011