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Fig. 9 | BMC Genomics

Fig. 9

From: Conserved associations between G-quadruplex-forming DNA motifs and virulence gene families in malaria parasites

Fig. 9

Analysis of concordance among motifs predicted by QGRS Mapper, G4 Hunter and experimental G4-seq in the P. falciparum 3D7 genome. A circos plot (a) shows the distribution of PQSs across the 14 chromosomes in the P. falciparum 3D7 genome. Data from QGRS Mapper, G4 Hunter and experimental G4-seq are depicted by blue, orange and black circles, respectively. G4-seq yielded no data for chromosomes 2, 5 and 7 because these chromosomes were not covered in the original sequencing data (GEO accession GSM3003550). Note that telomeric PQSs with similar locations appear to cluster into a single data point, which visually minimizes the number of these PQSs (particularly in the case of QGRS Mapper, where many PQSs were detected within telomere repeats). Venn diagrams (b and c) depict the overlaps between PQS sequences detected by QGRS Mapper, G4 Hunter (threshold = 1.7), and experimental G4-seq. For G4-seq data, PQSs within 20 kb of chromosomal ends were considered telomeric. Due to the size of the G4-seq windows, it was possible for multiple PQSs to fall within the same window. Numbers in parentheses show the “full” count of PQSs detected within G4-seq windows, while numbers not in parentheses show the number of unique G4-seq windows that contained at least one PQS

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