genome.fa.s7.2.7.7.80.10.50.1000.13.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   

This is table  13  of  79  ( 9388 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)
4424007--4424205	96	2.1	97	81	1	240	35	16	13	34	1.88
4424153--4424249	44	2.2	45	83	7	126	35	9	9	46	1.68
4426722--4426777	17	3.2	17	72	18	60	21	3	10	64	1.40
4427002--4427094	39	2.4	39	77	10	100	30	17	21	31	1.96
4429728--4430060	109	3.1	109	90	0	508	33	17	16	31	1.93
4430672--4430702	16	1.9	16	93	0	53	64	3	0	32	1.09
4432179--4432432	44	5.9	42	72	10	165	26	20	23	29	1.99
4432225--4432426	41	4.8	41	73	10	154	26	20	22	29	1.99
4432175--4432432	130	2.0	130	91	1	419	26	20	22	30	1.98
4442743--4442776	16	2.1	16	88	0	50	41	23	17	17	1.90
4443696--4444028	109	3.1	109	87	0	481	34	16	15	32	1.91
4446338--4446400	31	2.0	31	100	0	126	41	12	20	25	1.88
4447501--4447729	64	3.3	69	83	9	233	35	7	14	41	1.75
4447573--4447757	64	2.9	63	84	9	207	34	8	16	41	1.78
4449220--4449395	91	1.9	90	85	3	237	42	13	12	31	1.82
4451043--4451098	21	2.7	21	88	0	85	26	8	35	28	1.87
4453966--4454017	25	2.1	25	89	7	79	59	3	32	3	1.33
4454085--4454120	18	2.0	18	94	0	63	38	2	58	0	1.13
4455548--4455660	19	5.8	19	87	4	172	38	10	15	35	1.81
4455549--4455655	40	2.7	40	94	2	182	39	11	14	35	1.81
4455548--4455667	59	2.1	56	87	6	170	39	10	15	35	1.80
4469251--4469284	1	34.0	1	87	0	50	0	5	0	94	0.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4469248--4469284	9	3.9	10	89	10	60	0	8	0	91	0.41
4469248--4469284	19	2.0	18	94	5	65	0	8	0	91	0.41
4469577--4469622	22	2.1	22	84	15	60	43	19	6	30	1.76
4473005--4473035	15	2.1	15	100	0	62	41	6	19	32	1.77
4475181--4475249	35	1.9	36	97	2	131	37	8	7	46	1.63
4475459--4475501	17	2.6	16	82	10	52	55	0	2	41	1.12
4476470--4476515	18	2.5	19	86	13	62	32	30	0	36	1.58
4480203--4480395	50	3.7	50	86	4	242	25	21	29	23	1.99
4487246--4487308	31	2.0	31	100	0	126	19	22	30	28	1.98
4487276--4487462	50	3.7	50	85	0	239	19	28	23	27	1.98
4487277--4487462	100	1.9	101	86	1	266	19	29	23	27	1.99
4501714--4501895	87	2.1	88	97	2	348	34	3	10	51	1.52
4503179--4503252	31	2.4	31	86	0	94	51	16	9	22	1.73
4505661--4505693	17	1.9	17	93	0	57	27	6	3	63	1.32
4505666--4505701	17	2.1	17	89	5	54	27	8	5	58	1.50
4505832--4505860	13	2.1	14	93	6	51	75	0	6	17	1.01
4506016--4506274	129	2.0	130	99	0	511	34	11	9	44	1.73
4517563--4517621	12	4.8	12	76	17	50	22	0	1	76	0.88
4517563--4517621	19	3.2	18	81	11	66	22	0	1	76	0.88
4517582--4517621	4	10.5	4	80	20	50	25	0	0	75	0.81
4517572--4517629	26	2.3	27	85	8	77	22	1	1	74	1.01
4517572--4517629	15	3.9	15	77	18	59	22	1	1	74	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4517563--4517628	7	10.0	7	80	11	61	22	1	1	74	0.99
4517780--4517830	22	2.3	23	83	10	70	27	45	9	17	1.80
4518764--4518954	99	1.9	100	87	5	280	27	16	26	30	1.97
4518941--4518982	17	2.4	18	76	19	52	73	2	0	23	0.94
4518945--4518980	16	2.2	17	90	5	56	72	2	0	25	0.98
4519566--4519595	15	2.0	15	93	0	51	50	0	10	40	1.36
4521988--4522012	5	5.0	5	100	0	50	40	0	0	60	0.97
4525684--4525718	18	1.9	18	88	0	52	71	2	14	11	1.25
4525856--4525928	25	2.9	25	82	10	69	36	5	19	38	1.75
4525868--4525928	25	2.4	25	86	5	79	34	4	22	37	1.76
4532670--4532745	31	2.5	31	77	8	77	35	2	14	47	1.58
4532759--4532898	64	2.2	64	89	0	217	34	13	15	36	1.87
4532671--4532919	32	8.0	32	73	5	163	34	9	15	40	1.80
4533942--4533974	17	2.0	17	88	5	50	33	0	21	45	1.52
4544085--4544217	40	3.5	40	72	10	132	32	21	24	21	1.98
4544046--4544261	75	2.9	73	83	6	263	31	22	25	19	1.98
4544043--4544188	35	4.1	34	75	9	123	33	23	25	17	1.96
4544584--4544665	35	2.3	35	93	0	137	37	14	30	17	1.89
4547382--4547444	18	3.6	18	72	10	58	52	7	3	36	1.47
4547557--4547597	10	4.2	10	76	17	50	68	0	2	29	1.03
4547665--4547703	15	2.5	15	88	12	53	76	0	2	20	0.90
4547797--4547833	18	2.1	18	94	0	65	70	2	5	21	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4548113--4548207	47	2.0	48	91	2	156	31	27	30	10	1.90
4550667--4550716	19	2.6	20	84	12	61	36	2	6	56	1.36
4557585--4557619	18	1.9	18	88	0	52	74	17	8	0	1.06
4564733--4564781	17	2.9	17	84	6	64	65	0	28	6	1.16
4565834--4565876	21	2.0	21	95	0	77	27	27	20	23	1.99
4569305--4569498	50	3.8	51	75	5	153	25	24	20	29	1.99
4569578--4569710	58	2.3	58	84	2	169	21	25	26	27	1.99
4572320--4572368	24	2.0	25	84	4	64	32	22	24	20	1.98
4580838--4580879	16	2.8	16	78	7	52	38	21	0	40	1.53
4594292--4594337	24	1.9	24	86	0	65	45	19	23	10	1.82
4600107--4600191	40	2.2	39	93	4	145	36	11	16	35	1.85
4600107--4600191	19	4.4	19	91	5	143	36	11	16	35	1.85
4607281--4607339	18	3.1	18	73	21	50	40	1	35	22	1.64
4614011--4614086	31	2.5	31	77	0	80	32	11	10	44	1.75
4616595--4616622	14	2.0	14	100	0	56	57	0	0	42	0.99
4624828--4624869	2	21.0	2	100	0	84	50	0	0	50	1.00
4634133--4634185	16	3.3	16	94	0	88	37	3	32	26	1.74
4634165--4634252	44	2.0	44	86	2	122	29	4	27	38	1.76
4637643--4637743	51	2.0	52	84	9	136	34	12	14	37	1.85
4638084--4638115	14	2.3	14	100	0	64	21	6	12	59	1.55
4638228--4638553	90	3.6	90	88	0	492	26	6	15	51	1.66
4641565--4641644	25	3.2	25	70	7	72	36	15	25	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4641699--4641749	25	2.0	25	92	0	84	31	23	27	17	1.97
4641710--4641762	25	2.1	25	82	6	63	32	24	26	16	1.97
4641822--4641881	25	2.4	25	80	5	68	41	18	23	16	1.90
4641837--4641884	25	1.9	25	91	0	78	41	22	18	16	1.90
4644168--4644222	5	10.0	5	81	18	65	20	21	0	58	1.40
4644171--4644222	11	4.6	11	81	13	61	21	23	0	55	1.43
4644168--4644221	28	1.9	28	88	7	83	18	22	0	59	1.38
4644162--4644306	17	8.2	17	76	15	89	20	15	0	64	1.34
4644547--4644589	21	2.0	21	82	8	52	32	6	0	60	1.23
4644768--4644973	27	8.2	27	68	21	128	23	11	0	64	1.30
4644827--4644951	26	5.4	21	68	23	81	23	10	0	65	1.28
4644805--4645000	48	4.0	48	89	3	284	22	11	1	64	1.33
4644805--4645000	97	2.0	98	90	4	306	22	11	1	64	1.33
4644889--4645010	21	5.4	21	70	19	70	23	10	0	64	1.30
4645033--4645228	44	4.5	44	88	0	275	35	2	12	49	1.54
4649033--4649141	46	2.4	44	82	13	125	37	3	3	55	1.35
4649055--4649142	23	3.9	23	78	10	92	37	3	2	56	1.28
4656581--4656647	31	2.1	32	91	5	109	47	7	5	38	1.56
4657182--4657241	28	2.1	28	82	11	70	55	8	6	30	1.55
4657576--4657642	31	2.1	32	91	5	109	47	7	5	38	1.56
4658177--4658236	28	2.1	28	82	11	70	55	8	6	30	1.55
4661142--4661188	16	3.1	15	79	8	60	36	0	2	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4668601--4668651	20	2.7	19	82	8	59	41	1	3	52	1.31
4681356--4681460	25	4.3	24	81	10	101	39	20	23	17	1.92
4681378--4681460	25	3.3	25	87	0	121	38	20	22	18	1.93
4681359--4681460	50	2.1	50	83	8	131	39	19	23	17	1.92
4682416--4682443	5	5.6	5	100	0	56	57	0	0	42	0.99
4702466--4702501	16	2.2	16	95	0	63	41	33	0	25	1.55
4703134--4703238	53	2.0	53	85	9	142	31	7	13	47	1.71
4703261--4703366	54	2.0	54	92	0	176	27	9	15	48	1.75
4703103--4703437	127	2.6	128	85	3	448	30	13	12	42	1.82
4703317--4703510	71	2.7	72	85	4	264	28	17	13	41	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79