OGRDB

Genotype 'Genotype - with Database 3' (Submission S00003)


Genotype Name	Genotype - with Database 3
Subject ID	IB
Locus	IGH
Sequence Type	V
Genotype Filename	genotype_database_3.csv
Tool/Settings	IgDiscover with Database 3

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NCBI Information

Sample	Title
SAMN05924296	IB_after_1d
SAMN05924297	IB_after_1h
SAMN05924298	IB_after_1w
SAMN05924299	IB_after_2w
SAMN05924300	IB_after_3d
SAMN05924301	IB_after_3w
SAMN05924302	IB_after_4w
SAMN05924303	IB_before_1h
SAMN05924304	IB_before_2d
SAMN05924305	IB_before_8d

Record Set	Title
SRR4431767	IB_after_1d
SRR4431766	IB_after_1h
SRR4431765	IB_after_1w
SRR4431764	IB_after_2w
SRR4431771	IB_after_3d
SRR4431770	IB_after_3w
SRR4431769	IB_after_4w
SRR4431768	IB_before_1h
SRR4431773	IB_before_2d
SRR4431772	IB_before_8d

Legend:

Allele names in italic are not listed in the reference set.
Allele names in bold are put forward in the submission for consideration as inferred sequences.
A cross in the Sequence column indicates that the sequence listed in the genotype does not match the sequence of the corresponding allele in the reference set.
An information icon in the Sequence column alerts you to other information on this sequence - hover over for details.

Novel Alleles

Allele name	Sequences	Closest Reference	Closest in Host	NT Diffs (reference)	NT Substs (reference)	AA Substs (reference)
IGHV3-43D01_S3103*	211	IGHV3-43D*01	IGHV3-43*01	1	C195A	0
IGHV3-702_A318G*	1847	IGHV3-7*02	IGHV3-7*01	1	A318G	0
IGHV4-5908*	3595

Genotype

Allele name	Sequences	Unmutated Seqs	Unmutated % within allele	Allelic %	Total unmutated population (%)	Unique CDR3s with unmutated	Haplotyping Gene
IGHV1-18*01	6893	3082	44.71	100.00	3.00	2656	Haplotyping not possible
IGHV1-2*02	8218	3098	37.70	80.00	3.02	2664	Haplotyping not possible
IGHV1-2*04	1959	772	39.41	20.00	0.75	675	Haplotyping not possible
IGHV1-24*01	2548	1095	42.97	100.00	1.07	944	Haplotyping not possible
IGHV1-3*01	2147	936	43.60	100.00	0.91	812	Haplotyping not possible
IGHV1-45*02	22	9	40.91	100.00	0.01	8	Haplotyping not possible
IGHV1-46*01	4270	1754	41.08	100.00	1.71	1548	Haplotyping not possible
IGHV1-58*02	666	271	40.69	100.00	0.26	237	Haplotyping not possible
IGHV1-69*01	9476	4045	42.69	48.00	3.94	3558	Haplotyping not possible
IGHV1-69*02	3896	1635	41.97	20.00	1.59	1428	Haplotyping not possible
IGHV1-69*06	6408	2692	42.01	32.00	2.62	2376	Haplotyping not possible
IGHV1-69-2*01	465	219	47.10	100.00	0.21	193	Haplotyping not possible
IGHV1-8*01	5184	2132	41.13	100.00	2.08	1875	Haplotyping not possible
IGHV2-26*01	3183	1631	51.24	100.00	1.59	1369	Haplotyping not possible
IGHV2-5*01	2570	1199	46.65	45.00	1.17	1008	Haplotyping not possible
IGHV2-5*02	3252	1494	45.94	55.00	1.46	1245	Haplotyping not possible
IGHV2-70*01	376	179	47.61	100.00	0.17	158	Haplotyping not possible
IGHV2-70D*04	264	116	43.94	100.00	0.11	96	Haplotyping not possible
IGHV3-11*01	2718	857	31.53	51.00	0.83	772	Haplotyping not possible
IGHV3-11*05	2514	831	33.05	49.00	0.81	763	Haplotyping not possible
IGHV3-13*01	879	294	33.45	43.00	0.29	265	Haplotyping not possible
IGHV3-13*04	1124	387	34.43	57.00	0.38	339	Haplotyping not possible
IGHV3-15*01	7714	2792	36.19	100.00	2.72	2439	Haplotyping not possible
IGHV3-20*01	761	207	27.20	100.00	0.20	188	Haplotyping not possible
IGHV3-21*01	13697	5129	37.45	100.00	5.00	4493	Haplotyping not possible
IGHV3-23*01	39006	12378	31.73	100.00	12.06	10831	Haplotyping not possible
IGHV3-30*18	9552	3089	32.34	100.00	3.01	2802	Haplotyping not possible
IGHV3-33*01	15659	4929	31.48	100.00	4.80	4530	Haplotyping not possible
IGHV3-43*01	393	148	37.66	100.00	0.14	138	Haplotyping not possible
IGHV3-43D01_S3103*	211	72	34.12	100.00	0.07	66	Haplotyping not possible
IGHV3-48*02	4692	1373	29.26	36.00	1.34	1239	Haplotyping not possible
IGHV3-48*03	7506	2483	33.08	64.00	2.42	2154	Haplotyping not possible
IGHV3-49*03	1651	630	38.16	50.00	0.61	564	Haplotyping not possible
IGHV3-49*04	1765	628	35.58	50.00	0.61	520	Haplotyping not possible
IGHV3-53*02	1435	503	35.05	47.00	0.49	453	Haplotyping not possible
IGHV3-53*04	1411	567	40.18	53.00	0.55	497	Haplotyping not possible
IGHV3-64*01	1102	400	36.30	100.00	0.39	358	Haplotyping not possible
IGHV3-64D*06	1535	540	35.18	100.00	0.53	469	Haplotyping not possible
IGHV3-66*02	2450	924	37.71	100.00	0.90	809	Haplotyping not possible
IGHV3-7*01	4081	1259	30.85	72.00	1.23	1100	Haplotyping not possible
IGHV3-702_A318G*	1847	495	26.80	28.00	0.48	434	Haplotyping not possible
IGHV3-72*01	668	173	25.90	100.00	0.17	146	Haplotyping not possible
IGHV3-73*01	828	241	29.11	49.00	0.23	220	Haplotyping not possible
IGHV3-73*02	1046	251	24.00	51.00	0.24	231	Haplotyping not possible
IGHV3-74*01	5787	1214	20.98	100.00	1.18	1023	Haplotyping not possible
IGHV3-9*01	6033	2294	38.02	100.00	2.23	2002	Haplotyping not possible
IGHV4-28*01	24	13	54.17	100.00	0.01	10	Haplotyping not possible
IGHV4-31*03	7426	2919	39.31	100.00	2.84	2536	Haplotyping not possible
IGHV4-34*01	22622	9609	42.48	100.00	9.36	8450	Haplotyping not possible
IGHV4-38-2*01	4222	1721	40.76	100.00	1.68	1475	Haplotyping not possible
IGHV4-39*01	12319	4840	39.29	100.00	4.71	4151	Haplotyping not possible
IGHV4-4*02	2296	856	37.28	45.00	0.83	774	Haplotyping not possible
IGHV4-4*07	2833	1058	37.35	55.00	1.03	909	Haplotyping not possible
IGHV4-59*01	8247	3146	38.15	70.00	3.06	2750	Haplotyping not possible
IGHV4-5908*	3595	1347	37.47	30.00	1.31	1181	Haplotyping not possible
IGHV4-61*02	7634	2923	38.29	100.00	2.85	2525	Haplotyping not possible
IGHV5-10-1*01	1669	605	36.25	100.00	0.59	542	Haplotyping not possible
IGHV5-51*01	3206	865	26.98	59.00	0.84	777	Haplotyping not possible
IGHV5-51*03	1843	607	32.94	41.00	0.59	540	Haplotyping not possible
IGHV6-1*01	2135	696	32.60	100.00	0.68	625	Haplotyping not possible
IGHV7-4-1*01	49	17	34.69	100.00	0.02	17	Haplotyping not possible
Totals	279982	102669	36.67