genome.fa.s72.2.7.7.80.10.50.1000.33.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  33  of  39  ( 4596 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)
4744137--4744175	11	3.5	11	86	10	53	56	0	0	43	0.99
4745419--4745514	23	4.4	22	70	22	69	40	0	1	58	1.05
4745423--4745490	20	3.4	21	76	21	74	39	0	0	60	0.97
4745462--4745514	25	2.1	25	82	6	63	41	0	1	56	1.10
4746573--4746607	13	2.7	13	90	0	52	57	0	0	42	0.99
4746847--4746871	4	6.2	4	100	0	50	76	0	0	24	0.80
4747097--4747250	8	17.4	8	66	26	55	42	0	2	55	1.14
4747111--4747191	29	2.8	29	80	12	80	41	0	1	56	1.07
4747140--4747189	17	3.4	15	77	22	61	40	0	0	60	0.97
4747184--4747254	32	2.2	33	85	7	92	43	0	2	53	1.15
4748664--4748703	2	20.5	2	94	5	73	47	0	0	52	1.00
4748793--4748826	17	2.0	17	88	0	50	35	0	2	61	1.11
4749101--4749138	18	2.2	17	90	4	58	71	0	0	28	0.87
4748891--4749396	236	2.1	235	91	1	827	44	4	6	45	1.48
4750579--4750630	15	3.3	15	76	23	61	53	0	0	46	1.00
4750582--4750634	16	3.2	16	76	23	65	54	0	0	45	0.99
4750563--4750650	18	5.2	18	72	27	77	53	0	0	46	1.00
4750563--4750649	33	2.7	33	98	1	167	54	0	0	45	1.00
4753064--4753090	2	13.5	2	100	0	54	48	0	51	0	1.00
4753275--4753324	21	2.5	20	71	9	50	50	2	0	48	1.12
4753313--4753354	22	1.9	22	90	9	68	64	0	0	35	0.94
4753805--4753833	2	15.0	2	92	7	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)
4754452--4754482	2	15.5	2	100	0	62	51	0	0	48	1.00
4755003--4755044	18	2.5	17	80	7	50	52	0	0	47	1.00
4756119--4756160	15	2.9	15	78	3	50	50	0	0	50	1.00
4756395--4756439	21	2.1	21	87	0	63	46	0	0	53	1.00
4759737--4759944	104	2.0	104	97	0	389	37	24	13	24	1.92
4762733--4762791	6	9.3	6	79	17	66	32	0	1	66	1.02
4762717--4762796	38	2.1	38	81	4	90	40	0	1	58	1.06
4762732--4762806	12	6.1	13	76	13	70	36	0	1	62	1.04
4763360--4763389	2	15.0	2	100	0	60	0	50	0	50	1.00
4763512--4763572	5	11.4	5	74	19	52	49	0	0	50	1.00
4763519--4763573	11	4.9	11	75	18	51	49	0	0	50	1.00
4763564--4763630	23	2.9	23	84	8	91	58	1	0	40	1.07
4763575--4763648	38	2.0	36	82	15	89	59	1	1	37	1.14
4766166--4766195	15	2.0	15	100	0	60	20	13	26	40	1.89
4774448--4774481	12	2.8	12	90	0	50	41	0	8	50	1.34
4784301--4784335	2	17.5	2	100	0	70	48	0	0	51	1.00
4786704--4786742	2	20.0	2	94	5	71	51	0	0	48	1.00
4787723--4787773	25	2.1	25	88	3	77	49	0	1	49	1.12
4788628--4788663	2	18.0	2	100	0	72	0	50	0	50	1.00
4790862--4790890	2	14.5	2	100	0	58	51	0	0	48	1.00
4792214--4792238	13	1.9	13	100	0	50	32	8	8	52	1.60
4796486--4796514	14	2.1	14	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4805436--4805464	14	2.1	14	100	0	58	55	13	0	31	1.39
4806243--4806282	2	20.0	2	100	0	80	0	50	0	50	1.00
4806860--4806910	17	3.0	17	71	8	50	47	0	0	52	1.00
4806841--4806901	28	2.1	29	85	8	81	42	0	0	57	0.98
4808734--4808765	5	6.2	5	92	7	55	81	0	18	0	0.70
4809772--4809801	10	2.8	11	90	10	53	46	0	6	46	1.29
4818689--4818722	2	17.0	2	93	0	59	47	0	0	52	1.00
4819614--4819648	18	1.9	18	88	0	52	82	0	2	14	0.77
4821658--4821793	46	3.0	46	97	0	254	38	18	16	25	1.92
4821788--4821819	4	8.0	4	92	0	55	46	28	0	25	1.53
4821789--4821819	16	1.9	16	100	0	62	45	29	0	25	1.54
4828169--4828228	19	3.3	19	69	21	65	41	6	6	45	1.57
4828157--4828228	35	2.1	35	97	0	135	44	8	6	40	1.61
4829628--4829661	17	1.9	17	88	5	50	41	0	8	50	1.34
4830823--4830848	2	13.0	2	100	0	52	50	0	0	50	1.00
4830947--4830980	2	17.0	2	100	0	68	50	0	0	50	1.00
4831214--4831240	2	13.5	2	100	0	54	51	0	0	48	1.00
4831348--4831383	2	18.0	2	88	0	54	44	2	2	50	1.31
4832576--4832654	35	2.1	39	84	9	103	50	1	0	48	1.08
4833002--4833049	24	1.9	26	83	8	64	45	0	0	54	0.99
4833276--4833316	12	3.4	12	89	0	64	43	2	4	48	1.37
4833276--4833316	2	20.5	2	84	0	55	43	2	4	48	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4834083--4834173	36	2.5	36	77	11	98	49	0	1	49	1.08
4835152--4835190	19	2.0	20	90	5	62	53	0	0	46	1.00
4835733--4835776	20	2.2	20	91	0	70	52	0	4	43	1.22
4842549--4842609	23	2.8	22	80	7	61	50	0	1	47	1.10
4842557--4842601	23	2.0	23	86	0	63	53	0	0	46	1.00
4842900--4842961	27	2.4	25	76	15	72	45	0	0	54	0.99
4858341--4858378	18	2.1	19	90	9	62	23	0	7	68	1.16
4858352--4858411	16	3.7	16	78	14	61	28	5	5	61	1.38
4858565--4858623	21	3.0	20	73	26	54	45	0	1	52	1.10
4858589--4858652	26	2.5	26	80	17	71	54	0	0	45	0.99
4858611--4858650	15	2.6	16	84	11	57	60	0	0	40	0.97
4859121--4859163	17	2.5	18	85	11	63	30	0	2	67	1.03
4863207--4863277	10	7.0	10	72	3	61	43	0	1	54	1.08
4863234--4863273	21	1.9	21	84	0	53	37	0	2	60	1.11
4863798--4863831	4	8.5	4	100	0	68	26	0	23	50	1.50
4863939--4863966	2	14.0	2	100	0	56	50	0	0	50	1.00
4864587--4864660	34	2.2	34	97	0	139	41	16	6	35	1.74
4865243--4865296	21	2.6	21	75	0	54	31	27	5	35	1.80
4869208--4869249	3	14.0	3	100	0	84	66	0	33	0	0.92
4882775--4882808	2	17.0	2	100	0	68	50	0	0	50	1.00
4885380--4885414	2	17.5	2	100	0	70	0	48	0	51	1.00
4885760--4885835	31	2.5	30	77	12	75	48	2	0	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4888766--4888978	117	1.8	117	86	2	311	29	22	5	43	1.74
4891436--4891464	2	14.5	2	100	0	58	51	0	0	48	1.00
4891808--4891887	20	4.2	20	63	15	51	53	0	2	43	1.14
4891808--4891923	57	2.1	56	95	3	207	55	0	1	42	1.16
4892274--4892341	29	2.4	29	74	16	70	47	2	0	50	1.16
4894401--4894552	81	1.9	81	87	2	225	36	9	6	47	1.63
4894455--4894493	20	2.0	21	90	10	64	25	2	7	64	1.33
4894546--4894572	2	13.5	2	100	0	54	48	0	0	51	1.00
4894834--4894879	17	2.8	16	83	6	56	43	0	0	56	0.99
4894866--4894933	25	2.7	25	84	8	77	54	1	0	44	1.09
4894892--4894922	15	2.1	14	94	5	53	61	0	0	38	0.96
4895374--4895415	21	2.0	20	86	4	57	59	0	2	38	1.10
4898816--4899029	115	1.8	117	85	5	301	28	21	8	42	1.82
4902162--4902211	19	2.6	19	80	0	64	40	2	6	52	1.38
4903596--4903668	22	3.2	23	71	22	64	57	0	0	42	0.98
4904629--4904671	17	2.6	17	79	17	54	48	0	4	46	1.22
4907104--4907136	2	16.5	2	100	0	66	48	0	0	51	1.00
4908258--4908306	2	25.0	2	79	4	55	46	2	2	48	1.25
4908189--4908282	43	2.2	43	81	7	102	38	0	0	61	0.96
4908513--4908556	21	2.2	19	84	8	52	47	0	0	52	1.00
4908539--4908632	14	6.9	14	74	11	54	48	0	0	51	1.00
4908518--4908573	21	2.6	22	77	8	62	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4909419--4909472	25	2.1	26	82	3	65	59	0	0	40	0.98
4909936--4909984	21	2.2	20	80	16	53	59	0	8	32	1.27
4912363--4912411	17	2.8	17	75	3	53	48	2	2	46	1.25
4912395--4912471	34	2.3	34	80	6	86	32	0	2	64	1.07
4912411--4912500	35	2.5	36	84	8	105	33	0	3	63	1.11
4913345--4913443	27	3.8	27	76	10	98	48	24	5	22	1.70
4918476--4918542	27	2.5	27	75	2	64	55	1	2	40	1.24
4919018--4919121	41	2.5	41	80	14	101	44	0	2	51	1.22
4920758--4921040	50	5.7	50	89	0	397	29	20	18	32	1.96
4925426--4925708	50	5.7	50	85	3	322	33	19	13	33	1.91

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