What it does
DNA sequence in FASTA format:
>CHR1 CCCTAAACCCTAAACCCTAAACCCTAAACCTCTGAATCCTTAATCCCTAAATCCCTAAAT CTTTAAATCCTACATCCATGAATCCCTAAATACCTAATTCCCTAAACCCGAAACCGGTTT CTCTGGTTGAAAATCATTGTGTATATAATGATAATTTTATCGTTTTTATGTAATTGCTTA TTGTTGTGTGTAGATTTTTTAAAAATATCATTTGAGGTCAATACAAATCCTATTTCTTGT GGTTTTCTTTCCTTCACTTAGCTATGGATGGTTTATCTTCATTTGTTATATTGGATACAA
Prediction result in text format:
Chromosome/Contig = CHR1 Position P-start Occup N/L Affinity 1 0.000 0.000 0 2.843 2 0.032 0.032 0 2.839 3 0.840 0.872 1 2.815 4 0.001 0.872 1 2.814
or in Wiggle fixedStep format:
track type=wiggle_0 name="Nucleosome_Position_Prediction" description="Genome source Homo sapiens" fixedStep chrom=CHR1 start=1 step=1 span=1 0.000 0.032 0.872 0.872
FASTA format A sequence in FASTA format begins with a single-line description, followed by lines of sequence data. The description line is distinguished from the sequence data by a greater-than (">") symbol in the first column. The token until the first space or the end of the line is used as identifier for the sequence. The remainer of the description line will be ignored.
Prediction result format The prediction results including nucleosome occupancy score, Viterbi prediction and nucleosome affinity score with the corresponding position in the genome sequence.
Wiggle fixedStep format The data is introduced by a line beginning with the keyword "fixedStep", and the arguments "chrom", "start", "step" and "span". The arguments are indicating the chromosome on which the features are located, starting position of the first feature, the spacing between each feature and the width of each feature in base pair respectively.