NFAR.fasta.2.7.7.80.10.50.500.6.html

Tandem Repeats Finder Program written by:

Gary Benson
Department of Biomathematical Sciences
Mount Sinai School of Medicine
Version 4.00

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: NFA 2003-09-04
Parameters: 2 7 7 80 10 50 500
Length:  6021225

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 836 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4460784--4460995	61	3.5	59	75	15	168	12	35	37	14	1.84
4468988--4469026	13	2.9	14	84	7	53	17	23	46	12	1.83
4479142--4479178	15	2.5	15	95	4	67	0	32	51	16	1.45
4489054--4489091	18	2.1	19	95	5	69	31	34	28	5	1.80
4509860--4509899	21	1.9	21	89	0	62	7	27	52	12	1.66
4545870--4545923	15	3.6	15	97	0	99	11	53	25	9	1.66
4557965--4558231	36	7.4	36	87	1	302	11	32	46	9	1.72
4576362--4576398	18	2.1	18	100	0	74	16	27	35	21	1.94
4588159--4588224	30	2.2	30	97	0	123	16	31	27	24	1.96
4599183--4599222	18	2.2	18	86	8	55	7	47	40	5	1.54
4600183--4600207	12	2.1	12	100	0	50	8	52	40	0	1.31
4632039--4632119	16	5.1	16	84	0	81	20	20	37	20	1.95
4645137--4645283	76	1.9	76	100	0	294	12	48	27	10	1.75
4664313--4664644	16	21.3	15	72	9	166	13	36	31	17	1.89
4664334--4664592	31	8.3	31	88	2	295	11	35	33	19	1.88
4679859--4680044	33	5.6	33	72	15	152	16	43	34	5	1.71
4679858--4680038	99	1.8	99	84	7	251	17	42	34	5	1.73
4679926--4680070	66	2.2	66	84	0	182	19	40	34	6	1.77
4679945--4680072	66	1.9	66	88	0	193	18	39	35	6	1.76
4679963--4680140	33	5.4	33	71	12	114	19	35	38	6	1.77
4680134--4680239	33	3.2	33	82	2	133	16	35	39	8	1.79
4680101--4680252	66	2.3	65	81	8	173	18	34	38	8	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4680531--4680581	26	2.0	26	84	7	68	7	52	35	3	1.49
4681776--4681818	22	2.0	22	95	4	79	9	32	34	23	1.87
4690224--4690274	14	3.6	14	89	0	75	17	33	43	5	1.73
4690216--4690274	28	2.1	28	83	0	73	18	32	44	5	1.72
4699295--4699489	75	2.6	75	94	0	347	17	34	40	7	1.78
4711515--4711571	18	3.2	18	89	0	87	12	28	57	1	1.44
4720679--4720717	18	2.2	18	86	9	53	7	43	38	10	1.67
4752091--4752125	15	2.3	15	90	0	61	0	34	51	14	1.42
4758037--4758109	27	2.7	27	93	0	119	10	39	41	8	1.70
4758152--4758207	15	3.7	15	75	0	58	10	48	32	8	1.69
4758824--4758888	21	3.1	21	80	4	69	12	47	36	3	1.57
4758917--4759200	78	3.6	77	88	4	408	24	47	28	0	1.52
4758917--4759198	156	1.8	156	92	0	483	24	47	28	0	1.52
4785796--4785842	15	3.1	15	93	0	76	10	23	51	14	1.74
4825495--4825532	14	2.4	16	87	12	53	10	42	42	5	1.62
4851456--4851495	21	1.9	21	89	0	62	25	50	25	0	1.50
4856018--4856051	15	2.1	17	89	10	54	0	32	64	2	1.08
4867820--4867866	15	3.1	15	81	0	67	12	36	38	12	1.82
4869134--4869158	13	1.9	13	100	0	50	16	36	40	8	1.77
4878136--4878166	15	2.1	15	93	0	53	9	58	32	0	1.31
4880934--4880970	15	2.4	16	86	13	51	8	35	40	16	1.78
4893682--4893718	18	2.1	18	94	0	65	16	35	29	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4893689--4893727	18	2.2	18	90	0	60	15	33	33	17	1.92
4894834--4894868	16	2.2	16	100	0	70	20	28	40	11	1.87
4898663--4898694	15	2.1	15	94	0	55	6	50	37	6	1.53
4900502--4900530	15	1.9	15	100	0	58	13	41	31	13	1.84
4901536--4901600	21	3.1	21	95	0	103	18	52	29	0	1.46
4901604--4901639	15	2.4	15	100	0	72	33	33	33	0	1.58
4935781--4935812	14	2.4	14	94	5	57	18	34	34	12	1.89
4940164--4940214	15	3.4	15	86	10	77	13	54	21	9	1.67
4944913--4945010	39	2.5	39	91	0	160	13	43	40	2	1.55
4945725--4945750	12	2.2	12	100	0	52	23	34	34	7	1.83
4946369--4946794	77	5.5	77	98	0	816	12	46	28	12	1.77
4948372--4948474	51	2.0	51	100	0	206	7	49	29	13	1.70
4950349--4950399	21	2.5	20	81	9	57	11	31	45	11	1.77
4968582--4968612	16	1.9	16	93	0	53	12	19	51	16	1.76
4976503--4976536	9	3.8	9	84	0	50	8	26	38	26	1.85
5008924--5008979	15	3.7	15	82	0	58	19	30	48	1	1.59
5010722--5010752	16	1.9	16	100	0	62	25	32	25	16	1.96
5021582--5021616	18	1.9	18	94	0	61	17	31	40	11	1.85
5021674--5021732	18	3.3	18	76	9	75	18	32	44	5	1.72
5021677--5021819	36	4.0	36	76	10	141	19	32	41	6	1.76
5022132--5022238	30	3.6	30	81	0	115	21	52	20	5	1.67
5022164--5022261	30	3.3	30	80	5	99	23	52	17	7	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5023549--5023594	24	1.9	24	86	0	65	6	28	50	15	1.69
5025923--5025976	24	2.2	24	83	0	63	18	42	37	1	1.61
5045072--5045124	27	2.0	27	84	0	70	5	43	35	15	1.70
5045134--5045200	18	3.5	20	75	19	63	7	32	41	17	1.78
5045164--5045205	18	2.3	18	95	0	75	4	42	35	16	1.69
5056093--5056126	14	2.5	14	95	4	61	2	52	32	11	1.53
5057724--5057758	17	2.0	18	88	5	54	5	31	48	14	1.67
5067383--5067665	77	3.7	77	97	1	525	19	37	35	8	1.81
5070795--5070834	20	2.0	20	90	0	62	25	42	17	15	1.88
5075292--5075397	27	3.9	27	89	0	158	18	22	43	15	1.87
5083980--5084010	15	2.1	14	94	5	53	19	29	32	19	1.96
5091304--5091342	18	2.2	18	95	0	69	33	30	20	15	1.94
5101953--5101991	18	2.2	18	100	0	78	15	46	23	15	1.83
5106752--5106788	18	2.1	18	100	0	74	21	43	24	10	1.84
5131604--5131633	15	2.0	15	93	0	51	0	30	66	3	1.07
5141837--5141889	23	2.3	23	96	0	97	11	45	30	13	1.78
5144428--5144474	18	2.6	18	89	0	76	12	72	10	4	1.25
5144519--5144548	15	2.0	15	100	0	60	6	46	33	13	1.69
5167589--5167652	18	3.1	21	82	14	73	21	26	40	10	1.86
5167616--5167652	18	2.1	18	100	0	74	21	27	45	5	1.73
5168672--5168712	15	2.7	15	88	0	64	0	31	43	24	1.54
5180391--5180428	20	1.9	20	89	5	60	5	39	55	0	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5187462--5187546	17	5.0	17	94	0	134	5	40	29	24	1.79
5195543--5195577	6	5.8	6	100	0	70	14	34	34	17	1.90
5195927--5196057	42	3.3	41	83	11	164	19	51	28	0	1.52
5195952--5196088	36	3.6	36	86	7	159	19	49	29	0	1.54
5196908--5196936	15	1.9	15	100	0	58	24	55	20	0	1.44
5196984--5197028	15	3.0	15	100	0	90	20	46	33	0	1.51
5197409--5197476	30	2.3	30	84	0	82	30	45	16	7	1.74
5197397--5197465	15	4.6	15	83	0	75	31	46	13	8	1.73
5202401--5202456	18	3.3	17	80	14	62	7	33	30	28	1.84
5202417--5202461	18	2.5	18	79	13	56	6	33	31	28	1.83
5202408--5202533	30	4.2	30	73	14	100	9	28	31	30	1.89
5202400--5202533	15	8.9	15	74	15	84	9	29	31	29	1.89
5202521--5202560	21	1.9	21	89	0	62	12	25	30	32	1.92
5204196--5204230	18	1.9	18	94	0	61	8	37	37	17	1.80
5204216--5204270	15	3.7	15	68	18	51	5	29	47	18	1.71
5204294--5204331	18	2.1	18	90	0	58	7	34	42	15	1.76
5204304--5204355	24	2.1	25	86	10	72	7	30	42	19	1.79
5204329--5204379	18	3.0	16	77	22	59	9	33	39	17	1.83
5204388--5204422	18	1.9	18	94	0	61	8	45	28	17	1.77
5207863--5207896	18	1.9	17	94	5	59	8	44	29	17	1.79
5207935--5207979	15	3.0	15	80	0	63	15	31	26	26	1.96
5208203--5208251	18	2.7	17	78	12	53	24	22	40	12	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5218953--5218983	15	2.1	15	100	0	62	35	38	12	12	1.82
5226777--5226836	24	2.5	24	78	10	61	15	31	50	3	1.60
5231437--5231490	18	3.2	18	76	15	60	22	42	31	3	1.71
5231453--5231481	15	1.9	15	100	0	58	24	48	27	0	1.51
5241527--5241672	30	4.9	30	91	0	220	21	53	18	6	1.67
5247633--5247667	18	1.9	18	94	0	61	8	42	37	11	1.72
5289402--5289445	22	2.0	22	100	0	88	4	27	50	18	1.66
5299381--5299434	27	2.0	27	100	0	108	7	40	44	7	1.60
5304711--5304740	15	2.0	15	100	0	60	13	53	26	6	1.64
5325950--5325984	15	2.2	16	90	5	54	11	37	42	8	1.72

Tables:   1   2   3   4   5   6   7