Rice Haplotype Map Project Database
(Second Generation)
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National Center for Gene Research, CAS


Genotype Dataset of the Second Generation Rice Haplotype Map

The set of 950 varieties

total.950lines.chr1.TotalMAF.gz

(158736 SNPs)

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(23.87M)

total.950lines.chr2.TotalMAF.gz

(135373 SNPs)

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(19.66M)

total.950lines.chr3.TotalMAF.gz

(135920 SNPs)

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(19.24M)

total.950lines.chr4.TotalMAF.gz

(111639 SNPs)

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(16.97M)

total.950lines.chr5.TotalMAF.gz

(102670 SNPs)

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(14.18M)

total.950lines.chr6.TotalMAF.gz

(114305 SNPs)

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(17.05M)

total.950lines.chr7.TotalMAF.gz

(106301 SNPs)

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(16.19M)

total.950lines.chr8.TotalMAF.gz

(102539 SNPs)

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(15.56M)

total.950lines.chr9.TotalMAF.gz

(84529 SNPs)

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(12.91M)

total.950lines.chr10.TotalMAF.gz

(86869 SNPs)

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(13.47M)

total.950lines.chr11.TotalMAF.gz

(113037 SNPs)

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(18.83M)

total.950lines.chr12.TotalMAF.gz

(93511 SNPs)

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(15.07M)

The subset of 508 indica accessions

indica.508lines.chr1.MAF.gz

(82894 SNPs)

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(7.42M)

indica.508lines.chr2.MAF.gz

(69922 SNPs)

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(6.71M)

indica.508lines.chr3.MAF.gz

(72824 SNPs)

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(6.22M)

indica.508lines.chr4.MAF.gz

(66395 SNPs)

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(6.13M)

indica.508lines.chr5.MAF.gz

(57099 SNPs)

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(4.84M)

indica.508lines.chr6.MAF.gz

(63769 SNPs)

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(5.35M)

indica.508lines.chr7.MAF.gz

(62131 SNPs)

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(5.27M)

indica.508lines.chr8.MAF.gz

(53776 SNPs)

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(5.12M)

indica.508lines.chr9.MAF.gz

(41601 SNPs)

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(3.88M)

indica.508lines.chr10.MAF.gz

(40044 SNPs)

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(3.70M)

indica.508lines.chr11.MAF.gz

(73105 SNPs)

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(7.63M)

indica.508lines.chr12.MAF.gz

(59466 SNPs)

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(5.99M)

The subset of 383 japonica accessions

japonica.383lines.chr1.MAF.gz

(51201 SNPs)

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(3.16M)

japonica.383lines.chr2.MAF.gz

(30408 SNPs)

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(1.95M)

japonica.383lines.chr3.MAF.gz

(31238 SNPs)

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(1.76M)

japonica.383lines.chr4.MAF.gz

(51305 SNPs)

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(3.26M)

japonica.383lines.chr5.MAF.gz

(33888 SNPs)

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(1.79M)

japonica.383lines.chr6.MAF.gz

(39261 SNPs)

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(2.39M)

japonica.383lines.chr7.MAF.gz

(45744 SNPs)

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(2.79M)

japonica.383lines.chr8.MAF.gz

(47947 SNPs)

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(3.06M)

japonica.383lines.chr9.MAF.gz

(32214 SNPs)

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(1.98M)

japonica.383lines.chr10.MAF.gz

(52094 SNPs)

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(3.36M)

japonica.383lines.chr11.MAF.gz

(37187 SNPs)

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(2.89M)

japonica.383lines.chr12.MAF.gz

(41302 SNPs)

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(2.68M)

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