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Table 3 Placement and chi-square significance of microsatellite distribution inside and outside of ORFs from GSSRs, BSSRs, and ESSRs of carrot*

From: Microsatellite isolation and marker development in carrot - genomic distribution, linkage mapping, genetic diversity analysis and marker transferability across Apiaceae

Repeat type GSSRs BSSRs ESSRs
  χ2 p (df = 1) χ2 p (df = 1) χ2 p (df = 1)
Dinucleotide 2.79 0.10 0.23 0.63 60.89 0.00
Trinucleotide 0.14 0.71 4.55 0.03 1.30 0.25
Tetranucleotide 18.00 0.00 2.96 0.09 17.06 0.00
Pentanucleotide 2.00 0.16 0.04 0.84 3.57 0.06
Hexanucleotide 0.00 1.00 0.14 0.71 0.42 0.52
Total 2.73 0.10 0.15 0.70 29.70 0.00
  1. * A minimum of 6 repeat units (r.u.) for dinucleotides, 4 r.u. for trinucleotides, and 3 r.u. for tetra-, penta-, hexa-, hepta-,and octanucleotides were used as parameters for searching microsatellites in genomic and EST sequence of carrot. Chi-square distributions indicate observed SSR motif types inside versus outside ORFs as compared to posterior probabilities. χ2 = chi-squared statistic; df = degrees of freedom. Observed distributions generally fit those expected (p ≥0.05) except for tetranucleotides for GSSRs (from a hybridization-based enrichment of genomic library), and trinucleotides for BSSRs (from BAC end sequence). For ESSRs (from ESTs) the observed distributions only fit expected ones for tri-, penta-, and hexanucleotide repeats, with observed occurrence of di- and tetranucleotide repeats occurring much more often outside ORFs than expected.