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Nucleotide numbering goes from 1858 to 3182 and restarts at 1.
Nucleotide numbering corresponds to the COL5A1 reference sequence (NM_000093.3) and is according to HGMD guidelines.
The start of nucleotide numbering was selected to correspond with the published GAS genomes.
Nucleotide numbering was performed following the guidelines of the Human Genome Variation Society [12], using M13936.1 [13] as the genomic CYP21A2 reference sequence.
Nucleotide numbering is based on the EcoRI endonuclease restriction site.
All nucleotide numbering was done with reference to the TSS.
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Nucleotide numbers refer to the original sequences.
Based on a previous report, a large deleted region would seem to exist in the Hind III J fragment located between nucleotide numbers 2439 and 11,270.
Nucleotide numbers are derived from cDNA GCK sequence (GenBank NM_000162) considering nucleotide +1 the A of the first ATG translation initiation codon in the reference sequence.
The signal strength was assessed from the Fourier transform of the oscillating curve of the motif/complement count versus the nucleotide number.
For example, window #1 corresponded to nucleotide numbers 1 to 100000, #2 corresponded to nucleotide numbers 50000 to 150000, etc. Fourier amplitudes were computed every base pair throughout the physiological dinucleosome range, and 100 kb windows that met the criterion for having a strong VWG signal (see Results, Fig. 1A and B) were selected and maintained automatically by the program.
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