MiniMUGA Sample Report - Initial Version |
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MMRRC Strain Name | B6.129P2-Gabrqtm1Dgen/Mmnc | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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MMRRC Strain ID | 11620 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sample ID | EJ9304 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Genotyping Quality |
Excellent (3 N calls)
All reported results are dependent on genotyping quality. |
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Chromosomal Sex | XY | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Genome Analysis |
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Constructs Detected |
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Backgrounds Detected
(Diagnostic Alleles) |
Minimal Strain Sets Explaining All Diagnostic Classes (Number of Markers Explained):
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Strain Reproducibility |
Strain Reproducibility Samples: TU1546, EJ9304
Inbreeding Level: 98.6% Y Chromosome: Host Congenicity Level: 99.5% Donor Contribution in Linked Interval: 28.1Mb The genome of this strain is not reproducible because there are regions that are still segregating (at least 1.4%) at the strain level. The estimation of contribution of primary and secondary background depends on the number of samples genotyped. The impact of this on the published phenotype(s) is unknown. |
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Substrain Reproducibility |
97.4% of the genome is distinguishable between two substrains contributing to the primary background. Of this:
Ideogram 1 Ideogram 2 |
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Notes | Genetic QC analysis (GQC) was performed on representative samples from the donor submission and provides a baseline reference. Regardless of the material ordered (live mice, sperm, embryos, resuscitated animals), the provided material is guaranteed to contain the primary genetic alteration of interest; however, the composition of the genetic background may vary (See Reproducibility sections of the report for details). The impact of genetic background on previously reported phenotypes has not been evaluated.
GQC analysis was done on two XY samples (TU1546, EJ9304) at the time of importation and the conclusions are consistent in all samples. The results of the analysis are fully congruent with the SDS and EJ9304 is the representative sample selected for the report. The primary (host) background is C57BL/6. There is positive evidence for the presence of the C57BL/6J and C57BL/6NCrl substrains. The secondary (donor) background is consistent with 129P2/OlaHsd, which is indicated in the submission and the SDS as the donor strain. The mitochondrial genome is consistent with both the host and donor backgrounds (identical by descent). The Y chromosome is consistent with at least one backcross to a male from the host background. The region containing the allele of interest has the expected donor background (129P2/OlaHsd). Both samples are hemizygous for the donor background at the locus. The following construct(s) are detected in all samples: IRES. The genome of MMRRC:011620 mice is 98.6 % inbred and 99.5% congenic at the strain level. 1.4% of the genome is segregating for the secondary (donor) background. 71.9% of the genome is segregating for the two substrains (C57BL/6J and C57BL/6NCrl) that contribute to the primary (host) background. The contribution of C57BL/6J is 60.4%. The contribution of C57BL/6NCrl is 39.6%. The estimated inbreeding, congenicity, and the relative strain/substrain contribution depend on the number of samples genotyped. The genomes of strains that are not fully inbred are not completely reproducible. |
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Diplotype Intervals |