genome.fa.s106.2.7.7.80.10.50.1000.25.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  25  of  27  ( 3135 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)
4390118--4390155	3	13.0	3	88	5	60	31	0	0	68	0.90
4395893--4395927	7	4.9	7	89	6	52	17	28	31	22	1.96
4398715--4398755	21	2.0	21	85	0	55	51	0	4	43	1.23
4399205--4399252	24	2.0	24	91	0	78	27	20	16	35	1.94
4402918--4402965	11	3.6	14	76	18	50	50	0	0	50	1.00
4406538--4406588	19	2.7	20	81	6	61	54	0	0	45	0.99
4406566--4406608	13	2.9	15	80	16	54	55	0	0	44	0.99
4407683--4407721	2	20.0	2	84	5	53	46	0	5	48	1.24
4410664--4410736	33	2.2	33	90	0	110	45	1	2	50	1.24
4413560--4413603	21	2.1	21	100	0	88	34	13	9	43	1.76
4421743--4421767	9	2.8	9	100	0	50	76	0	0	24	0.80
4423882--4423929	3	16.0	3	95	0	87	33	2	0	64	1.05
4423954--4424000	2	23.0	2	91	4	76	48	4	0	46	1.21
4424420--4424468	18	2.7	18	81	12	55	24	0	4	71	1.03
4425857--4425932	27	3.0	25	77	11	82	46	23	3	26	1.70
4429598--4429653	24	2.3	24	84	6	69	39	21	7	32	1.80
4431172--4431233	24	2.5	24	82	7	63	41	0	1	56	1.09
4431197--4431234	12	3.2	12	88	0	58	39	0	0	60	0.97
4432585--4432657	35	2.0	38	86	7	107	26	8	10	54	1.63
4435303--4435334	2	16.0	2	100	0	64	50	0	0	50	1.00
4439984--4440058	34	2.3	33	80	13	86	49	0	0	50	1.00
4440005--4440051	17	2.8	16	71	22	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4449848--4449880	2	16.5	2	100	0	66	51	0	0	48	1.00
4450476--4450539	20	3.0	21	82	11	67	32	0	0	67	0.91
4450490--4450539	20	2.4	21	86	6	75	34	0	0	66	0.92
4451824--4451881	26	2.3	25	94	5	100	34	24	15	25	1.95
4451871--4451936	27	2.4	27	89	0	96	24	10	19	45	1.82
4454511--4454556	21	2.1	22	88	4	67	32	17	30	19	1.95
4456420--4456477	26	2.3	25	94	5	100	34	24	15	25	1.95
4456467--4456532	27	2.4	27	89	0	96	24	10	19	45	1.82
4456494--4456563	24	2.8	24	77	14	70	21	10	22	45	1.81
4457273--4457317	20	2.2	20	84	7	56	51	4	0	44	1.21
4458141--4458203	18	3.6	18	66	12	58	44	0	0	55	0.99
4458107--4458207	35	2.9	34	82	12	116	43	0	0	56	0.99
4458128--4458179	17	3.1	16	72	20	52	50	0	0	50	1.00
4458187--4458246	23	2.6	22	79	7	75	33	3	0	63	1.11
4458180--4458246	17	4.0	17	68	22	52	32	2	0	64	1.09
4459595--4459631	15	2.4	16	86	4	58	29	5	0	64	1.15
4459599--4459641	15	2.9	15	86	6	61	25	6	0	67	1.15
4463679--4463706	12	2.3	12	100	0	56	50	14	35	0	1.43
4469444--4469502	22	2.9	21	70	12	52	6	8	13	71	1.30
4469985--4470036	26	2.0	26	82	14	63	46	0	3	50	1.20
4470033--4470057	11	2.3	11	100	0	50	68	0	0	32	0.90
4474962--4475029	27	2.5	27	85	7	84	25	4	25	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4479238--4479295	28	2.1	28	84	12	75	24	5	24	46	1.72
4479231--4479295	27	2.4	27	84	10	87	23	6	23	47	1.73
4480227--4480444	16	13.2	16	73	6	157	44	5	3	46	1.42
4480294--4480335	22	1.9	22	85	9	59	52	4	0	42	1.22
4480278--4480351	38	1.9	38	91	0	121	48	2	1	47	1.24
4480227--4480355	54	2.6	47	73	15	114	47	2	2	48	1.27
4482817--4482905	21	4.3	21	70	17	62	41	0	0	58	0.98
4482899--4482964	19	3.3	19	80	12	69	53	1	6	39	1.35
4482911--4482957	22	2.1	23	96	4	87	51	0	8	40	1.33
4483036--4483081	22	2.1	21	84	4	56	45	2	0	52	1.13
4488849--4488900	13	4.0	12	74	16	50	44	7	9	38	1.66
4490549--4490592	19	2.4	19	84	3	54	38	6	0	54	1.27
4491349--4491407	26	2.3	26	100	0	118	37	10	20	32	1.86
4494954--4495026	27	2.7	25	82	14	83	47	23	5	23	1.72
4496903--4496948	21	2.1	22	84	4	58	19	30	19	30	1.97
4499400--4499445	20	2.3	20	84	0	56	32	4	52	10	1.56
4506098--4506170	27	2.7	27	91	0	110	23	6	23	46	1.76
4510746--4510821	13	5.8	13	70	16	50	43	2	0	53	1.14
4511473--4511536	17	3.7	17	85	4	83	51	0	0	48	1.00
4511476--4511536	18	3.4	18	80	13	72	54	0	0	45	1.00
4511486--4511539	6	9.2	6	76	11	58	51	0	0	48	1.00
4511977--4512007	13	2.4	13	94	0	53	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4511978--4512048	38	2.0	38	84	13	98	43	0	0	56	0.99
4511991--4512028	20	1.9	20	89	10	60	42	0	0	57	0.98
4512024--4512074	11	4.9	11	81	13	63	45	0	0	54	0.99
4512001--4512065	19	3.3	20	80	8	80	44	0	0	55	0.99
4511990--4512065	38	2.1	35	85	7	98	43	0	0	56	0.99
4516323--4516372	24	2.1	25	85	7	68	34	16	12	38	1.85
4521057--4521083	3	9.0	3	100	0	54	66	0	0	33	0.92
4524031--4524059	2	14.5	2	100	0	58	0	51	0	48	1.00
4524327--4524607	141	2.0	141	97	0	526	33	15	21	29	1.94
4534481--4534535	15	4.0	15	69	28	50	43	1	47	7	1.41
4537019--4537044	2	13.0	2	100	0	52	50	0	50	0	1.00
4540644--4540677	15	2.3	15	90	10	52	41	2	38	17	1.65
4549674--4549789	57	2.0	57	89	0	178	33	19	13	32	1.91
4550666--4550700	2	17.5	2	100	0	70	0	51	0	48	1.00
4551923--4552179	139	1.8	139	96	0	478	32	18	14	35	1.91
4553131--4553198	31	2.2	32	81	7	86	47	1	1	50	1.19
4553151--4553207	15	3.7	15	81	9	71	47	0	0	52	1.00
4553643--4553680	15	2.5	15	82	0	58	63	0	0	36	0.95
4557130--4557162	17	1.9	17	88	11	50	27	6	12	54	1.60
4558884--4558953	27	2.5	28	86	9	99	45	24	5	24	1.74
4561837--4562268	214	2.0	214	99	0	855	27	22	16	33	1.95
4565576--4565601	1	26.0	1	100	0	52	0	0	100	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4566622--4566647	2	13.0	2	100	0	52	50	0	0	50	1.00
4566781--4566814	2	17.0	2	100	0	68	0	50	0	50	1.00
4570269--4570297	3	9.7	3	100	0	58	68	0	0	31	0.89
4578844--4578888	22	2.1	21	83	4	54	51	0	2	46	1.13
4580426--4580479	4	13.5	4	78	21	60	0	22	1	75	0.89
4580417--4580460	19	2.4	18	88	3	61	2	25	2	70	1.10
4580416--4580467	9	5.8	9	82	6	52	1	25	1	71	1.07
4580429--4580479	13	4.2	12	83	16	61	0	21	1	76	0.88
4582971--4583012	21	2.0	21	90	0	66	45	4	14	35	1.66
4589018--4589066	3	16.3	3	91	0	80	30	2	2	65	1.15
4589526--4589786	129	2.0	129	90	1	407	28	24	16	30	1.96
4595507--4595538	2	16.0	2	100	0	64	50	0	50	0	1.00
4598710--4598736	14	1.9	14	100	0	54	74	0	25	0	0.83
4599274--4599319	2	23.0	2	81	0	56	50	8	0	41	1.33
4599274--4599318	8	5.6	8	91	0	63	51	8	0	40	1.33
4599319--4599346	2	14.0	2	100	0	56	0	0	50	50	1.00
4609388--4609570	34	5.4	34	88	0	260	25	7	26	39	1.83
4613985--4614169	34	5.5	34	88	0	264	25	7	26	40	1.82
4633356--4633419	19	3.7	19	76	23	86	32	12	18	35	1.89
4633357--4633421	32	2.0	32	100	0	130	33	12	18	35	1.88
4633376--4633400	13	1.9	13	100	0	50	36	16	16	32	1.90
4633400--4633527	65	2.0	65	93	0	220	39	14	10	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4641488--4641521	2	17.5	2	93	6	61	50	0	0	50	1.00
4644248--4644286	2	19.5	2	89	0	60	48	2	2	46	1.29
4644513--4644611	32	3.3	28	77	21	94	42	0	1	56	1.06
4644556--4644623	33	2.1	32	83	8	84	42	1	1	54	1.18
4644596--4644646	21	2.2	24	83	16	65	35	1	0	62	1.06
4644617--4644650	15	2.2	16	89	5	52	32	0	0	67	0.91
4646295--4646424	44	3.0	44	95	0	224	46	26	12	14	1.80
4651075--4651104	2	15.0	2	100	0	60	0	50	0	50	1.00
4655007--4655042	2	18.0	2	100	0	72	50	0	50	0	1.00
4657340--4657373	12	2.9	12	91	4	52	91	8	0	0	0.43

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