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Submitted SNP(ss) Details: ss112646559           
Submitter
Handle1000GENOMES
Submitter SNP IDCEU.trio.12.15.2008_2863990_chr13_27999681
RefSNP(rs#)rs9550377
Submitted Batch IDpilot_2_CEU_trio_final_release
Submitted DateMar 29, 2010
Publication CitedN.D.
First entry to dbSNPDec 17 2008 12:00:00:000AM
Assay
SpeciesHomo sapiens
Molecular
Type		Genomic
MethodTRIO_CONSENSUS_CALLS
Ascertainment Samplesize4
PopulationN.D.
Allele
Observed AlleleC/T
Ancestral AlleleN.D.
Allele OriginN/A
SNP ClassSNV
CpG CodeN.D.
Validation
Validation StatusbyFreq
HWE Goodness of Fitnot applicable
Variation
Frequency SubmissionN.D.
Genotype Summarypopulation count: 14
Genotype SubmissionN.D.
HaplotypeN.D.
Comment
depth.cov:132

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|ss112646559|allelePos=201|len=401|taxid=9606|alleles='C/T'|mol=Genomic
 AGATCACAAC ACTGCACTCC AGCCCGGGAA ATGACAGTGA GACCCTGCCT CAAAAATAAA
 TAAATAAATA AATAAATAAA TGAGAAGAAC TTCATCTTTT ATAAGTGTAA TTTATTAAAG
 GCATGCTATA GTCTTGGACT CAGTGATTTT TACTTACGGG AGAATCTAGG CATTGAAAAA
 TCTAAGGTAC TACTGCTCAC
 Y
 TGCTTCCAAT GTGGCAGCTT GCTTAAACTG TGAGCAGGAT TCCAGGAGGA AACAAACTGA
 CTGGAATCTA GCCTTGCAGA CCCAAACCTG CAAGGCGATC GCAAACAAAC CCGCAAGGCC
 ATCGCAAACA TCCCTAGGTA TTTCAAACCT CATTAGGATT CACATGTTTC TTTTTTTTAA
 GGTGCCATAA CTAGGACTCT

  Submitted Frequency for ss112646559 back to top
There is no frequency submission for ss112646559.


  dbSNP summary of Genotypes for ss112646559 back to top

Population ID
 -Class		Total
Sample
(2N)		Founder
(2N)		Major
Allele
Freq.		Minor
Allele
Freq.		Genotype
Freq.		HWE Goodness of FitData
Source
HapMap-CEU226226C=0.88053095
T=0.11946902C/C=0.76991153
C/T=0.22123894
T/T=0.00884956
Pr(chiSq=0.300,df=1)
=0.584		Genotype
Freq.
HapMap-HCB
- EAST ASIA 		8686C=0.70930231
T=0.29069766C/C=0.51162791
C/T=0.39534885
T/T=0.09302326
Pr(chiSq=0.073,df=1)
=1.000		Genotype
Freq.
HapMap-JPT172172C=0.72674417
T=0.27325583C/C=0.52325583
C/T=0.40697673
T/T=0.06976745
Pr(chiSq=0.052,df=1)
=1.000		Genotype
Freq.
HapMap-YRI226226C=0.95132744
T=0.04867257C/C=0.90265489
C/T=0.09734514
Pr(chiSq=0.028,df=1)
=1.000		Genotype
Freq.
HAPMAP-ASW9898C=0.95918369
T=0.04081633C/C=0.91836733
C/T=0.08163265
Pr(chiSq=0.007,df=1)
=1.000		Genotype
Freq.
HAPMAP-CHB8282C=0.67073172
T=0.32926831C/C=0.51219511
C/T=0.31707317
T/T=0.17073171
Pr(chiSq=3.264,df=1)
=0.100		Genotype
Freq.
HAPMAP-CHD170170C=0.60000002
T=0.40000001C/T=0.49411765
C/C=0.35294119
T/T=0.15294118
Pr(chiSq=0.074,df=1)
=1.000		Genotype
Freq.
HAPMAP-GIH176176C=0.86363637
T=0.13636364C/C=0.75000000
C/T=0.22727273
T/T=0.02272727
Pr(chiSq=0.108,df=1)
=0.752		Genotype
Freq.
HAPMAP-LWK180180C=0.98333335
T=0.01666667C/C=0.96666664
C/T=0.03333334
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
HAPMAP-MEX100100C=0.95999998
T=0.04000000C/C=0.92000002
C/T=0.08000000
Pr(chiSq=0.007,df=1)
=1.000		Genotype
Freq.
HAPMAP-MKK286286C=0.98601401
T=0.01398601C/C=0.97202796
C/T=0.02797203
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
HAPMAP-TSI176176C=0.92613637
T=0.07386363C/C=0.85227275
C/T=0.14772727
Pr(chiSq=0.080,df=1)
=1.000		Genotype
Freq.

  Submitted individual genotype for ss112646559 back to top
There is no individual genotype data for ss112646559.

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