genome.fa.s500.2.7.7.80.10.50.1000.1.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: Scaffold500
Parameters: 2 7 7 80 10 50 1000
Length:  2046043

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  1  of  10  ( 1137 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)
3374--3431	23	2.4	23	83	11	64	50	1	3	44	1.29
3862--3945	25	3.4	25	75	9	82	58	2	0	39	1.11
3925--3956	11	2.9	11	100	0	64	46	0	0	53	1.00
5034--5086	24	2.2	24	86	0	70	9	24	26	39	1.86
11073--11098	2	13.0	2	100	0	52	50	0	0	50	1.00
12200--12236	15	2.5	15	86	13	58	64	0	0	35	0.94
12523--12556	2	17.0	2	93	0	59	0	47	2	50	1.16
12739--12778	22	2.0	20	85	14	55	7	2	35	55	1.42
18656--18697	3	14.0	3	94	0	66	28	0	0	71	0.86
21499--21552	24	2.4	22	82	14	74	40	0	0	59	0.98
22442--22497	16	3.4	16	80	2	58	51	14	7	26	1.67
23740--23776	16	2.2	17	95	4	67	59	0	0	40	0.97
23735--23776	16	2.6	16	92	3	66	54	0	0	45	0.99
23869--23911	21	2.2	20	84	12	54	60	0	2	37	1.10
24071--24121	18	2.7	18	80	17	50	78	0	1	19	0.85
32477--32505	12	2.3	13	94	5	51	51	24	6	17	1.69
35691--35737	15	3.3	15	82	8	62	57	2	0	40	1.11
35700--35744	15	3.1	14	84	12	56	62	0	0	37	0.96
36902--36941	19	2.2	18	90	4	62	30	0	0	70	0.88
36980--37073	48	2.0	47	82	14	113	53	3	0	43	1.17
37381--37487	55	1.9	56	88	1	162	50	8	4	36	1.54
38665--38700	18	1.9	19	88	5	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39143--39167	13	1.9	13	100	0	50	92	0	8	0	0.40
40086--40137	16	3.2	16	77	0	59	26	11	13	48	1.77
42659--42704	16	2.9	16	72	15	51	52	0	0	47	1.00
42641--42692	14	3.6	14	75	12	52	48	0	1	50	1.12
46526--46594	34	2.0	34	82	2	84	47	10	1	40	1.46
53231--53261	3	10.3	3	100	0	62	67	0	0	32	0.91
54778--54812	2	18.0	2	94	5	63	51	0	0	48	1.00
54780--54812	17	1.9	17	100	0	66	51	0	0	48	1.00
55306--55356	22	2.4	23	75	24	58	49	0	0	50	1.00
55296--55395	19	5.4	19	67	18	50	49	0	0	51	1.00
55383--55413	16	1.9	16	93	0	53	38	0	0	61	0.96
55334--55414	36	2.4	34	77	15	89	44	0	0	55	0.99
56427--56454	2	14.0	2	100	0	56	50	0	0	50	1.00
57880--57905	2	13.0	2	100	0	52	50	0	0	50	1.00
57933--58091	50	3.2	50	90	1	239	31	18	20	30	1.96
62486--62694	50	4.2	50	89	2	314	31	17	21	30	1.96
62486--62694	100	2.1	100	92	1	348	31	17	21	30	1.96
65387--65411	3	8.3	3	100	0	50	32	0	0	68	0.90
65788--65812	2	12.5	2	100	0	50	52	0	0	48	1.00
66940--66981	14	3.0	14	78	0	57	52	2	0	45	1.13
67325--67358	16	2.1	16	88	0	50	47	5	14	32	1.69
70545--70585	20	2.3	19	84	16	52	46	2	4	46	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
71223--71258	3	12.0	3	100	0	72	0	0	33	66	0.92
71619--71653	2	17.5	2	100	0	70	48	0	0	51	1.00
74765--74794	4	7.5	4	92	0	51	23	3	0	73	0.98
79156--79200	11	4.1	11	82	8	56	73	0	0	26	0.84
80809--80879	17	4.3	15	72	18	61	52	1	2	43	1.24
84510--84560	3	17.0	3	95	0	93	33	0	1	64	1.05
85728--85765	2	19.0	2	100	0	76	50	0	0	50	1.00
86277--86308	2	16.0	2	93	0	55	46	0	3	50	1.17
89181--89249	32	2.2	32	85	12	90	59	1	0	39	1.06
89259--89297	16	2.5	16	83	4	53	51	5	0	43	1.24
92304--92341	20	2.0	20	85	10	53	55	2	0	42	1.14
92320--92382	25	2.5	25	82	5	65	50	0	0	49	1.00
92335--92389	25	2.2	24	84	9	67	50	0	0	49	1.00
93575--93628	20	2.7	19	82	5	63	51	0	0	48	1.00
93682--93718	18	2.1	17	90	5	56	75	2	0	21	0.92
94137--94212	32	2.3	32	82	6	82	59	0	1	39	1.06
94132--94218	26	3.4	25	75	16	72	56	1	1	41	1.14
94219--94265	14	3.4	14	77	16	53	57	0	0	42	0.98
94219--94265	13	3.4	13	76	23	51	57	0	0	42	0.98
94230--94293	15	3.8	16	71	22	51	54	1	0	43	1.09
94361--94391	14	2.2	14	94	0	53	35	0	0	64	0.94
94922--95003	33	2.5	34	81	16	79	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)
94930--94995	6	11.7	6	73	14	52	46	0	0	53	1.00
94934--95003	33	2.2	32	87	7	97	48	0	0	51	1.00
94932--94995	11	5.7	11	80	12	60	45	0	0	54	0.99
97114--97159	23	2.0	23	91	8	76	26	6	10	56	1.58
98281--98331	17	2.9	17	77	13	50	35	0	0	64	0.94
99526--99558	12	2.6	13	85	9	50	48	0	3	48	1.17
99761--99795	2	17.5	2	100	0	70	51	0	0	48	1.00
100486--100554	19	3.6	19	76	9	70	39	0	0	60	0.97
100486--100553	18	3.6	18	72	20	59	38	0	0	61	0.96
100494--100585	33	2.7	33	80	16	98	44	0	0	55	0.99
100575--100616	17	2.4	18	80	4	50	28	0	4	66	1.12
100568--100626	30	2.0	30	82	0	73	30	1	5	62	1.26
102871--102926	19	3.0	19	79	7	53	58	0	1	39	1.08
103229--103308	32	2.4	34	79	6	83	56	1	2	40	1.21
105040--105144	32	3.3	32	70	20	87	45	0	0	53	1.06
105121--105171	19	2.7	19	82	11	68	31	3	0	64	1.11
105136--105165	10	3.1	10	90	9	53	26	0	0	73	0.84
116788--116813	13	2.0	13	100	0	52	30	23	7	38	1.83
120897--120937	12	3.5	12	90	6	66	70	0	0	29	0.87
120897--120929	11	2.9	11	95	4	57	75	0	0	24	0.80
120897--120946	23	2.2	23	88	0	73	68	0	0	32	0.90
124258--124300	2	22.5	2	81	9	54	53	2	0	44	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
124615--124719	54	1.9	54	100	0	210	38	25	22	13	1.91
132510--132727	119	1.8	119	92	0	373	31	24	21	22	1.98
134361--134403	2	21.5	2	95	0	77	48	0	2	48	1.14
137867--137902	2	18.0	2	100	0	72	50	0	0	50	1.00
139722--139828	43	2.5	43	92	0	178	29	5	27	37	1.80
145979--146018	2	20.0	2	100	0	80	50	0	50	0	1.00
153332--153379	24	2.0	24	83	0	60	41	6	6	45	1.54
153622--153659	20	1.9	19	94	5	67	47	0	0	52	1.00
165773--165822	24	2.1	24	96	0	91	36	6	8	50	1.57
165857--165913	25	2.2	25	79	11	62	59	1	1	36	1.18
165958--166012	18	2.9	18	80	15	58	41	1	0	56	1.10
165968--166021	21	2.7	20	82	11	65	38	1	0	59	1.08
165968--166019	19	2.5	20	84	9	61	38	1	0	59	1.08
165967--166019	20	2.7	20	82	5	63	39	1	0	58	1.09
165987--166169	96	1.9	97	82	14	232	44	1	1	53	1.17
166110--166149	20	2.0	20	85	9	55	32	0	2	65	1.06
169570--169664	29	3.2	29	68	14	68	56	1	3	38	1.22
170476--170510	18	1.9	18	94	0	61	51	5	17	25	1.67
176541--176676	30	4.7	27	68	24	75	59	0	0	38	1.08
176541--176616	8	9.2	8	72	19	50	59	1	0	39	1.06
176541--176595	29	2.0	26	83	13	67	60	0	0	40	0.97
176605--176639	17	2.0	17	88	5	52	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
176624--176676	29	1.9	26	88	11	79	60	0	1	37	1.08
176540--176675	19	6.9	20	68	22	76	59	0	0	38	1.08
176540--176671	59	2.2	58	76	14	135	59	0	0	39	1.08
176622--176683	26	2.2	28	84	15	85	58	0	1	40	1.08
177771--177859	29	3.0	29	90	3	142	57	0	2	40	1.11
177771--177863	30	3.1	30	87	3	143	56	0	2	40	1.11
178494--178543	20	2.6	20	82	14	61	38	0	0	62	0.96
178577--178626	21	2.3	22	80	10	59	42	0	0	58	0.98
183830--183920	31	3.0	30	70	13	78	47	1	1	50	1.15
184449--184548	20	4.0	26	73	18	86	49	4	0	47	1.20

Tables:   1   2   3   4   5   6   7   8   9   10