genome.fa.s249.2.7.7.80.10.50.1000.1.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: Scaffold249
Parameters: 2 7 7 80 10 50 1000
Length:  858763

Tables:   1   2   3   4   

This is table  1  of  4  ( 466 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)
3760--3798	20	1.9	21	89	5	62	71	0	2	25	0.98
4843--4883	13	3.2	13	81	18	50	46	0	0	53	1.00
5359--5390	2	16.0	2	100	0	64	50	0	50	0	1.00
5848--5900	12	4.5	12	82	13	58	60	0	0	39	0.97
5847--5895	25	2.0	24	88	11	73	59	0	0	40	0.98
5856--5897	13	3.3	12	86	6	57	64	0	0	35	0.94
5979--6005	2	13.5	2	100	0	54	51	0	0	48	1.00
6508--6563	22	2.6	21	76	17	62	58	1	0	39	1.08
7313--7346	17	2.1	16	88	5	50	61	0	2	35	1.11
7382--7429	18	2.7	17	80	6	51	50	4	0	45	1.21
7698--7749	24	2.2	24	92	0	86	44	5	5	44	1.52
7693--7750	24	2.3	25	82	8	73	46	6	5	41	1.53
13038--13069	3	10.7	3	93	0	55	65	31	3	0	1.08
13974--14015	19	2.1	20	83	16	52	33	2	0	64	1.07
18611--18742	71	1.9	71	87	6	196	37	14	19	28	1.91
21276--21300	13	1.9	13	100	0	50	32	0	4	64	1.12
21618--21661	23	2.0	22	86	4	61	61	4	0	34	1.16
23195--23241	20	2.3	21	96	3	87	4	27	19	48	1.67
26415--26453	15	2.7	15	88	4	53	58	2	0	38	1.12
26427--26477	25	2.1	24	82	10	59	62	1	0	35	1.06
27468--27540	33	2.1	34	83	14	89	47	0	0	52	1.00
27512--27558	21	2.2	20	79	17	51	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30905--30947	15	2.8	16	76	23	56	44	0	0	55	0.99
31145--31236	27	3.1	28	76	19	80	44	1	0	54	1.07
31221--31261	16	2.6	16	88	0	64	24	0	0	75	0.80
35124--35176	17	3.0	17	75	13	54	52	0	0	47	1.00
35128--35184	19	2.9	19	80	12	71	50	0	0	49	1.00
35116--35196	34	2.5	32	76	15	87	58	0	0	41	0.98
35115--35201	30	3.3	26	77	17	74	58	0	0	41	0.98
38055--38138	32	2.5	32	84	9	107	41	10	4	42	1.60
42646--42679	10	3.5	10	88	8	52	64	0	0	35	0.94
43181--43215	2	18.0	2	94	5	63	51	0	0	48	1.00
43554--43585	15	2.0	17	88	11	50	81	6	6	6	0.99
44169--44209	2	20.5	2	100	0	82	48	0	0	51	1.00
45886--45925	3	13.3	3	100	0	80	67	0	32	0	0.91
46525--46616	29	3.2	28	68	20	64	51	0	5	43	1.25
52103--52129	2	13.5	2	100	0	54	48	0	0	51	1.00
56297--56354	22	2.8	21	80	14	66	39	3	0	56	1.16
56298--56353	23	2.5	23	81	16	73	39	3	0	57	1.16
56350--56402	22	2.5	21	77	20	56	45	0	0	54	0.99
56876--56996	36	3.4	36	73	11	106	53	2	0	43	1.14
57397--57429	13	2.6	13	90	4	50	27	3	0	69	1.03
64771--64797	11	2.5	11	100	0	54	0	7	0	92	0.38
64771--64800	12	2.6	12	94	5	53	0	10	0	90	0.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65175--65224	20	2.4	21	80	6	57	56	2	8	34	1.40
69796--69891	5	19.6	5	71	20	53	35	0	1	63	1.01
69794--69920	64	1.9	69	85	10	185	37	0	1	60	1.06
69814--69894	35	2.3	36	81	8	96	37	0	1	61	1.04
69796--69943	64	2.3	64	77	14	155	33	1	2	62	1.15
73843--73868	2	13.0	2	100	0	52	50	0	0	50	1.00
77540--77576	17	2.2	18	85	9	51	54	0	0	45	1.00
77540--77596	18	3.2	17	75	7	51	56	0	0	43	0.99
77578--77607	15	2.0	15	93	0	51	53	3	0	43	1.17
82113--82141	5	5.8	5	100	0	58	20	0	0	79	0.74
82740--82780	21	1.9	22	85	5	57	36	4	2	56	1.34
82737--82787	22	2.3	22	80	6	59	33	3	1	60	1.26
82815--82863	17	3.1	16	72	22	50	67	12	0	20	1.22
83652--83693	18	2.3	18	80	8	50	54	0	0	45	0.99
83828--83863	2	18.0	2	100	0	72	50	0	0	50	1.00
84195--84225	2	15.5	2	100	0	62	48	0	0	51	1.00
84428--84452	13	1.9	13	100	0	50	48	4	0	48	1.20
86251--86286	2	18.0	2	100	0	72	50	0	0	50	1.00
89004--89045	21	2.0	20	95	4	75	14	26	4	54	1.59
100547--100786	120	2.0	120	100	0	480	50	22	11	15	1.77
102519--102551	2	16.5	2	100	0	66	51	0	0	48	1.00
102812--102876	17	3.9	17	73	9	55	46	0	1	52	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
103114--103163	2	25.0	2	87	0	73	44	0	6	50	1.26
103125--103171	24	2.0	24	100	0	94	38	0	10	51	1.37
104713--104798	22	4.0	22	71	17	63	45	1	2	51	1.21
105868--105911	2	22.0	2	95	0	79	50	2	0	47	1.13
111941--112006	17	4.1	17	82	5	75	51	0	3	45	1.16
111926--111988	23	2.7	22	73	9	54	53	0	3	42	1.16
111960--112007	15	3.1	15	87	6	69	54	0	0	45	0.99
111941--112006	32	2.0	33	88	8	100	51	0	3	45	1.16
112096--112149	19	2.9	19	76	13	58	44	0	1	53	1.11
117267--117311	22	2.0	23	82	4	56	53	2	2	42	1.25
120363--120432	20	3.1	22	73	18	63	52	0	1	45	1.09
120880--121085	110	1.8	114	85	10	296	41	1	0	55	1.14
121027--121073	20	2.3	21	88	3	69	42	2	0	55	1.12
131985--132009	3	8.3	3	100	0	50	32	0	0	68	0.90
133558--133588	3	10.3	3	92	0	53	32	3	0	64	1.09
139547--139582	2	18.0	2	100	0	72	50	0	0	50	1.00
141655--141696	22	1.9	22	85	0	57	50	0	0	50	1.00
142099--142157	27	2.2	26	80	14	66	47	1	1	49	1.21
142623--142661	21	1.9	20	89	5	60	30	0	0	69	0.89
142619--142668	21	2.4	22	73	10	59	40	0	0	60	0.97
142771--142819	21	2.3	21	79	6	55	32	0	6	61	1.21
142821--142912	33	2.9	30	77	18	89	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)
143405--143445	20	2.0	22	85	9	59	34	4	2	58	1.32
144708--144735	2	14.0	2	100	0	56	50	0	0	50	1.00
144833--144984	73	2.1	73	96	1	277	34	7	19	38	1.80
146555--146580	2	13.0	2	100	0	52	50	0	0	50	1.00
149670--149782	56	2.0	56	98	0	217	25	20	22	31	1.98
150771--150816	2	23.5	2	86	4	67	52	0	47	0	1.00
151496--151528	15	2.1	16	88	5	50	48	6	0	45	1.27
152023--152059	12	3.1	12	88	0	56	0	21	43	35	1.53
154578--154611	2	17.0	2	100	0	68	50	0	0	50	1.00
155082--155126	22	2.1	21	83	4	54	57	0	0	42	0.98
155477--155512	2	18.5	2	88	5	56	47	0	2	50	1.15
165593--165620	2	14.0	2	100	0	56	0	50	0	50	1.00
169000--169054	24	2.4	25	85	11	73	41	1	3	52	1.29
170300--170329	13	2.4	12	89	10	51	73	0	0	26	0.84
170997--171147	72	2.1	75	91	3	245	43	10	5	39	1.64
190555--190595	15	2.7	16	81	11	50	39	2	36	21	1.67
197282--197321	20	2.2	19	86	13	57	42	0	0	57	0.98
197293--197338	22	2.2	20	84	7	56	45	0	0	54	0.99
198088--198160	16	4.4	16	73	18	60	41	0	1	57	1.07
199124--199158	17	2.1	17	88	0	52	54	0	0	45	0.99
209008--209050	10	4.3	11	80	19	58	41	0	0	58	0.98
209003--209056	19	2.9	18	77	20	58	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
209064--209097	11	3.1	11	86	0	50	29	0	2	67	1.05
209053--209097	22	2.0	22	86	0	63	26	2	4	66	1.22
209261--209285	13	1.9	13	100	0	50	28	0	0	72	0.86
210492--210538	19	2.4	18	86	13	67	57	0	0	42	0.98
210798--210830	15	2.1	16	88	5	50	81	3	0	15	0.80
210798--210830	11	3.1	11	91	4	50	81	3	0	15	0.80
213534--213587	25	2.2	25	93	0	90	40	11	25	22	1.87
214623--214656	16	2.1	17	88	5	52	20	32	20	26	1.97
216358--216393	2	18.0	2	100	0	72	50	0	0	50	1.00
216750--216775	2	13.0	2	100	0	52	50	0	0	50	1.00

Tables:   1   2   3   4