Information of SNPs in and its ± 0 kb flanking region
According to the gene you input, we provide basic snp information, click the ref or alt column to view the
sample information. (PIC: polymorphism information content)
Chr.
Position
Ref (allele)
Alt (allele)
Ref (Frequency)
Alt (Frequency)
PIC
Ref (num)
Alt (num)
Function_Type
Variation_Type
Functional_annotations
Sample information
According to the Ref/Alt you input, we provide SNP sample information as belows.
Sample name
Germplasm name
Origin
Species
Sequencing depth
Source
Frequency of haplotypes in and its ± 0 kb flanking region ( ± 0 kb)
According to the gene/region you input, we extract haplotype
information. Note that selected frequency all exceed 0.010. And heterozygous and missing records have
been filtered out.
ID
Haplotype
Frequency
Sample
Haplotype sample
According to the haplptype you input, we provide haplotype sample information as belows.
Sample name
Germplasm name
Origin
Species
Sequencing depth
Source
Haplotype frequency
in and its ± 0 kb
flanking region
( ± 0 kb) in
sub-population
yes
no
yes
no
G0: Wild
G1: Landrace from Central America (CAL)
G2: Landrace from South China (SCL)
G3: Northwest China (NWC) and North China (NC)
G4: Three historical Chinese cotton planting areas
G5: Yangtze River region (YZR)
G6: The Yellow River region (YER) of China and the United States
G7: G. barbadense
Geographic distribution of haplotypes in
and its ± 0 kb
flanking region ( ± 0
kb)
yes
no
Customize phenotypic violin plot in
p-value:(Anova)
Pairwise test results of the accessions with different haplotypes
Haplotype1
Haplotype2
P-value(t-test)
P-value(wilcox-test)
Phenotypic value of haplotypes in
p-value:(Anova)
Pairwise test results of the accessions with different haplotypes
Haplotype1
Haplotype2
P-value(t-test)
P-value(wilcox-test)
expression in haplotypes of
p-value:(Anova)
Pairwise test results of the accessions with different haplotypes
Haplotype1
Haplotype2
P-value(t-test)
P-value(wilcox-test)
Information of SNPs in and its ± 0 kb flanking region
According to the gene you input, we provide basic snp information, click the ref or alt column to view the
sample information. (PIC: polymorphism information content)
Select
Chr.
Position
Ref (allele)
Alt (allele)
Ref (Frequency)
Alt (Frequency)
PIC
Ref (num)
Alt (num)
Function_Type
Variation_Type
Functional_annotations
Sample information
According to the Ref/Alt you input, we provide SNP sample information as belows.
Sample name
Germplasm name
Origin
Species
Sequencing depth
Source
Allele frequency of in sub-population
yes
no
yes
no
G0: Wild
G1: Landrace from Central America (CAL)
G2: Landrace from South China (SCL)
G3: Northwest China (NWC) and North China (NC)
G4: Three historical Chinese cotton planting areas
G5: Yangtze River region (YZR)
G6: The Yellow River region (YER) of China and the United States
