The Automatic Detection of Homologous Regions (ADHoRe) and Its Application to Microcolinearity Between Arabidopsis and Rice

Table 2.

Overview of the Colinear Regions Detected BetweenArabidopsis and Rice (99% significance level)

Rice Arabidopsis Anchor points BAC type Clone name Arabidopsis ORF Q Pchance (%)
 1 3 11 O P0529H11, P0005H10, P0414E03 At3g54100 0.988 0.00
 1 4 10 O P0481E12, P0046E05 At4g18870 0.880 0.25
 1 2 10 O P0439E11, P0031D02, B1088C09, P0485B12 At2g30300 0.964 0.03
 1 3 8 O P0506B12, P0031D11 At3g55180 0.973 0.99
 1 2 7 O P0506B12, P0031D11 At2g39400 0.989 0.20
 1 1 6 O P0480C01, B1131B07 At1g34060 0.889 0.89
 1 3 5 O P0454H12, OJ1529_G03 At3g08670 0.986 1.00
 4 5 5 I OSJNBa0038O10 At5g23280 0.984 0.45
 4 2 5 I OSJNBa0042L16 At2g23380 0.977 0.80
 6 3 5 I P0698A06 At3g14230 0.926 0.64
 1 2 5 O P0518C01 At5g59480 0.945 0.57
 4 5 4 I OSJNBa0088H09 At5g06340 0.969 0.63
 8 5 4 I P0543D10 At5g43420 0.919 0.44
 8 5 4 I P0705A05 At5g43420 0.929 0.63
 8 5 4 I P0690C12 At4g08100 0.929 0.63
 4 2 4 I OSJNBa0084K20 At2g43230 1.000 0.44
10 1 4 I OSJNBa0026O12 At1g03900 0.963 0.30
 4 3 4 I OSJNBa0033G16 At3g11630 0.985 0.63
10 1 4 I OSJNBb0044B19 At1g03900 0.987 0.25
 4 3 4 I OJ1661_E06 At3g11630 0.985 0.63
 6 5 4 I P0468G03 At5g57140 0.999 0.89
 4 3 4 I OSJNBa0088H09 At3g52470 0.995 0.63
 8 4 4 I OJ1005_B05 At4g22730 0.983 0.20
 2 1 4 I OJ1288_G09 At1g78080 0.980 0.63
  • Rice chromosome.

  • Arabidopsis chromosome.

  • O = overlapping BACs, I = individual BAC clone.

  • Gene indicating the position of the homologousArabidopsis segment.

  • Score obtained by quality filtering (see text for details).

  • Probability to be generated by chance.

This Article

  1. Genome Res. 12: 1792-1801

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