Locus 12629

Sequence ID dm3.chrX
Location 1,237,598 – 1,237,725
Length 127
Max. P 0.809500
window17366

overview

Window 6

Location 1,237,598 – 1,237,725
Length 127
Sequences 3
Columns 137
Reading direction reverse
Mean pairwise identity 88.32
Shannon entropy 0.16087
G+C content 0.42096
Mean single sequence MFE -30.04
Consensus MFE -28.69
Energy contribution -28.03
Covariance contribution -0.66
Combinations/Pair 1.12
Mean z-score -1.20
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.76
SVM RNA-class probability 0.809500
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1237598 127 - 22422827
UAUACCUCGAGGCUCGAGGAGCCAUUGGUGAGCUUUGAUGGCAAUUUCAUCCAUAGUUAACAACACAUAAUUGUUCCGUAACACACAUAUCGAGCAUCGAUUACAUGCAACCCGAUUUAUAACUUAU----------
......((((.((((((((((((((..(......)..))))).......)))...((((..((((......))))...)))).......)))))).))))...........................---------- ( -29.71, z-score =  -2.14, R)
>droSim1.chrX_random 942099 137 - 5698898
UACACCUCGAGGCUCGGGGAGCCAUUGGUGAGAUUUGAUGGCAAUUUCAUCCAUAGUUAACGACACAUACUUGUUCCGUAACAGACAUGUCGAGCAUCGGCUACAUGCAACCCGAUUUACUACUUUUUAUCACUUAU
....((....)).(((((..(((((..(......)..))))).............((((.((..(((....)))..)))))).(.(((((..(((....)))))))))..)))))...................... ( -30.70, z-score =  -0.64, R)
>droSec1.super_10 1070748 137 - 3036183
UACACCUCGAGGCUCGGGGAGCCAUUGGUGAGAUUUGAUGGCAAUUUCAUCUAUAGUUAACGACACAUACUUGUUCCGUAACAGACAUGUCGAGCAUCGGCUACAUACAACCCGAUUUACUACUUUUUAUCACUUAU
........(((((((((.(.(((((..(......)..))))).............((((.((..(((....)))..)))))).....).))))))(((((...........)))))................))).. ( -29.70, z-score =  -0.81, R)
>consensus
UACACCUCGAGGCUCGGGGAGCCAUUGGUGAGAUUUGAUGGCAAUUUCAUCCAUAGUUAACGACACAUACUUGUUCCGUAACAGACAUGUCGAGCAUCGGCUACAUGCAACCCGAUUUACUACUUUUUAUCACUUAU
......((((.((((((...(((((..(......)..))))).............((((..((((......))))...)))).......)))))).))))..................................... (-28.69 = -28.03 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:05:53 2011