MiniMUGA Sample Report

MiniMUGA Sample Report - V2

Sample ID

129S;B6-Gt(ROSA)26Sortm4(ACTB-tdTomato,-EGFP)Luo Rb1tm3Tyj Rbl2tm2Tyj Trp53tm1Brn/Mmucd_M_5346

Neogen ID

TF9562

MMRRC Strain ID

43692

MMRRC Strain Name

STOCK Gt(ROSA)26Sor^{tm4(ACTB-tdTomato,-EGFP)Luo} Rb1^tm3Tyj Rbl2^tm2Tyj Trp53^tm1Brn/Mmucd

Summary

The genotype of this sample is of excellent quality. It is male and close to inbred, and likely a mix of 129S4/SvJaeJ and multiple C57BL/6 substrains. Clustering of unexplained markers is evidence of an additional background strain.

Diagnostic SNPs indicate the presence of the background strain groups 129S, C57BL/6 and the substrains C57BL/6J.

The sample contains the following genetic constructs: Bovine growth hormone poly A signal sequence, "Greenish" Fluorescent Protein (EGFP, EYFP, ECFP), hCMV enhancer version a, hCMV enhancer version b, "Reddish" fluorescent protein (tdTomato, mCherry)

Genotyping Quality

Excellent (6 N calls)
All reported results are dependent on genotyping quality.

Chromosomal Sex

Inbreeding Estimate

Close to Inbred (273 H calls at autosomal, X, and PAR chromosome markers)

Inbreeding and
Genotyping Quality
(Plot)

Constructs Detected

BlastR	bpA	Cas9	chlor	Cre	DTA	g_FP	hCMV_a	hCMV_b	hTK_pr	iCre	IRES	Luc	r_FP	rtTA	SV40	tTA
-	+	-	-	-	-	+	+	+	-	-	-	-	+	-	-	-

Primary Background
(Autosomes,
X Chromosome)

Strain	Total	Consistent	Inconsistent	Heterozygous	Excluded
129S4/SvJaeJ	9719	7780 (81.2%)	1533 (16.0%)	272 (2.8%)	134

Secondary Background
(Autosomes,
X Chromosome)

Strain	Total	Explained	Unexplained	Excluded
multiple C57BL/6 substrains	1805 Clustered	1563 (16.3%) 1495 Clustered	197 (2.1%) 166 Clustered	45 (0.5%)

Y Chromosome

Y Haplogroup 6 - 98.4% Consistent
Includes 129S4/SvJaeJ and 11 other strains

MT Chromosome

MT Haplogroup 1 - 100.0% Consistent

Background Ideogram

Backgrounds Detected
(Diagnostic Alleles)

	Diagnostic Alleles Observed
Substrain	Homozygous	Heterozygous	Potential	% Observed
C57BL/6J	26	6	156	20.5%
Strain Group	Homozygous	Heterozygous	Potential	% Observed
129S (129S1/SvImJ, 129S2/SvHsd, 129S2/SvPasOrlRj, 129S4/SvJaeJ, 129S6/SvEvTac)	4	1	17	29.4%
C57BL/6 (C57BL/6NJ, C57BL/6NRj, C57BL/6NTac)	2	1	21	14.3%

Refined Analysis

Background	Informative Markers	Informative Markers %	Genomic Region %
129S4/SvJaeJ	1300	42.5%	40.5%
multiple C57BL/6 substrains	1338	43.7%	47.3%
Heterozygous	225	7.4%	7.3%
Unexplained Homozygous	162	5.3%	3.7%
Unexplained Heterozygous	35	1.1%	1.1%
Total	3060	100.0%	100.0%

Refined Ideogram

Notes

This sample is outbred and contains more than two strains. A potential solution was generated based on the SDS decription and the presence of diagnostics. bpA, g_FP, hCMV_a and b, and r_FP constructs were detected.