genome.fa.s105.2.7.7.80.10.50.1000.1.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  1  of  16  ( 1849 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)
3591--3982	158	2.5	158	85	6	509	36	9	10	43	1.72
3591--4043	158	2.9	156	82	8	413	37	9	11	41	1.74
15797--15835	19	2.1	19	100	0	78	41	5	41	12	1.65
18149--18199	20	2.5	20	81	12	68	56	1	0	41	1.10
18187--18227	19	2.3	19	88	12	61	46	0	2	51	1.14
21782--21840	28	2.1	28	90	3	91	38	0	18	42	1.51
21791--21849	28	2.0	29	80	6	66	44	1	20	33	1.62
21904--22288	158	2.4	157	84	5	492	36	9	11	43	1.73
22488--22528	17	2.5	17	92	4	66	75	0	2	21	0.92
36540--36603	27	2.3	29	78	10	71	50	1	3	45	1.27
36563--36603	19	2.3	19	88	12	61	46	0	2	51	1.14
36651--36686	18	1.9	18	88	5	54	66	0	0	33	0.92
40149--40208	28	2.1	28	90	3	93	38	0	18	43	1.50
40260--40652	157	2.5	158	84	7	482	36	9	10	43	1.72
40851--40891	17	2.5	16	92	4	64	75	0	2	21	0.92
54370--54408	17	2.2	18	86	9	53	46	0	2	51	1.14
54899--54944	20	2.3	20	82	10	58	56	2	0	41	1.11
54932--54972	19	2.3	19	88	12	61	46	0	2	51	1.14
58642--59036	159	2.5	158	85	6	502	36	9	10	43	1.72
59236--59277	17	2.5	17	92	0	66	78	0	2	19	0.86
72768--72806	17	2.2	18	86	9	53	46	0	2	51	1.14
73296--73341	20	2.3	20	82	10	58	56	2	0	41	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
73313--73378	26	2.4	27	75	12	64	53	1	0	45	1.09
73329--73359	16	2.0	16	93	6	55	48	0	0	51	1.00
73313--73382	27	2.6	27	80	8	81	51	1	0	47	1.09
79356--79392	16	2.2	17	95	4	67	48	2	0	48	1.15
79363--79416	16	3.1	18	82	15	60	44	0	1	53	1.11
79832--79923	9	9.8	9	69	14	53	52	0	1	46	1.07
79839--79923	19	4.6	18	75	17	75	52	0	1	45	1.08
80002--80037	17	2.1	17	90	10	56	50	0	0	50	1.00
80006--80052	20	2.6	18	83	10	51	55	0	2	42	1.12
85265--85300	18	2.0	18	89	10	56	44	22	16	16	1.86
85628--86517	459	1.9	459	93	0	1548	36	29	12	20	1.90
89130--89943	422	1.9	422	96	0	1520	33	18	21	25	1.96
95737--95772	18	2.0	18	94	0	63	44	25	11	19	1.83
99584--99616	15	2.1	16	94	5	59	48	0	0	51	1.00
99654--99678	13	1.9	13	100	0	50	40	0	0	60	0.97
104189--104229	2	20.5	2	94	0	73	46	0	2	51	1.14
111742--111852	28	4.1	27	75	15	95	56	0	0	41	1.11
111776--111880	56	1.9	53	83	12	133	59	0	0	39	1.11
112704--112732	15	1.9	15	100	0	58	13	6	31	48	1.69
112782--112869	16	5.5	16	72	10	81	15	17	27	39	1.90
112755--112861	32	3.3	32	92	2	162	15	16	27	40	1.89
113820--113878	21	2.8	22	79	10	59	40	3	3	52	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
113961--114028	16	4.2	16	77	3	66	16	14	26	42	1.86
113936--114028	32	2.9	32	82	3	107	17	15	23	44	1.86
114633--114667	2	17.5	2	93	0	61	0	48	2	48	1.16
116094--116159	16	4.1	17	67	23	52	53	0	0	46	1.00
120114--120148	17	2.0	18	94	5	63	54	0	0	45	0.99
121882--121906	1	25.0	1	100	0	50	0	100	0	0	0.00
123559--123586	2	14.0	2	100	0	56	50	0	0	50	1.00
124080--124129	25	1.9	25	88	8	73	54	0	0	46	1.00
124233--124343	53	2.1	53	83	6	136	56	1	1	39	1.20
125610--125646	18	2.1	17	90	5	56	67	0	0	32	0.91
137977--138019	19	2.2	20	83	4	61	55	0	0	44	0.99
138496--138533	2	19.0	2	88	0	58	50	0	5	44	1.24
138584--138641	23	2.6	23	71	15	59	43	0	0	56	0.99
138549--138635	32	2.7	32	78	8	88	45	0	0	54	1.00
139511--139556	16	2.6	18	76	16	51	47	0	6	45	1.28
140124--140161	16	2.4	16	86	4	51	60	0	2	36	1.11
140107--140153	25	1.9	25	86	4	69	57	0	4	38	1.18
140838--140866	14	2.1	14	100	0	58	24	0	6	68	1.13
141133--141177	22	2.0	22	91	8	74	71	0	0	28	0.87
143277--143335	27	2.1	28	82	14	70	44	1	1	52	1.21
149412--149458	16	2.8	17	87	3	60	55	0	0	44	0.99
149487--149529	22	2.0	20	83	16	52	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
150124--150166	21	2.2	20	83	8	52	44	2	0	53	1.13
150131--150175	21	2.1	21	83	0	54	42	4	0	53	1.21
150962--151003	20	2.0	21	86	9	59	50	0	0	50	1.00
151808--151853	13	3.4	14	80	14	53	34	2	0	63	1.07
152209--152269	18	3.0	20	70	20	56	42	1	0	55	1.09
152453--152486	17	2.0	17	100	0	68	52	17	5	23	1.66
153254--153289	14	2.5	14	90	4	54	63	5	2	27	1.30
154128--154153	2	13.0	2	100	0	52	50	0	0	50	1.00
157097--157138	22	1.9	22	90	9	68	59	0	0	40	0.97
157062--157170	36	3.1	34	77	7	87	54	0	0	44	1.06
159098--159122	12	2.1	12	100	0	50	8	52	32	8	1.60
159323--159356	16	2.3	15	90	10	52	47	0	0	52	1.00
160475--160535	16	3.9	15	79	10	68	52	0	0	47	1.00
160477--160541	32	2.0	32	87	0	94	52	0	1	46	1.10
160498--160544	16	2.9	16	81	9	60	57	0	2	40	1.11
161372--161448	17	4.4	17	70	19	52	44	2	1	51	1.23
161407--161451	17	2.7	16	80	10	54	48	0	0	51	1.00
169717--169759	14	3.0	15	80	10	54	44	0	0	55	0.99
169700--169759	14	4.1	14	76	12	50	46	0	1	51	1.10
170168--170215	22	2.1	22	88	3	69	33	4	0	62	1.14
174490--174595	39	2.6	39	77	7	106	54	1	0	42	1.17
174967--175007	12	2.9	14	79	20	50	56	4	0	39	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
174968--175013	13	3.3	14	80	17	51	58	6	0	34	1.24
175247--175294	23	2.1	23	85	11	64	39	2	0	58	1.10
177798--177833	14	2.4	14	90	9	54	55	0	0	44	0.99
177798--177833	5	7.2	5	90	9	56	55	0	0	44	0.99
180226--180258	13	2.5	14	90	9	52	66	0	0	33	0.92
180233--180288	9	5.6	10	78	16	53	64	1	0	33	1.04
185569--185610	19	2.2	19	87	8	59	23	21	9	45	1.81
193169--193218	2	25.0	2	95	0	82	46	0	54	0	1.00
194767--194837	25	2.8	26	81	10	67	39	1	2	56	1.23
194763--194869	55	1.9	56	81	12	132	37	1	3	57	1.28
200359--200508	75	2.0	76	86	2	212	41	17	22	19	1.90
201599--201667	20	3.5	20	80	9	70	60	0	0	39	0.97
201613--201670	19	3.0	18	79	20	64	60	0	0	39	0.97
201734--201800	20	3.5	20	70	12	68	44	2	1	50	1.26
201732--201805	37	2.0	37	100	0	148	43	5	2	48	1.40
201812--201865	20	2.6	21	83	16	69	42	0	0	57	0.98
207341--207378	3	12.7	3	88	0	58	26	5	0	68	1.11
207341--207378	12	3.2	12	96	0	67	26	5	0	68	1.11
209014--209092	13	6.2	13	69	14	56	43	0	1	55	1.07
209151--209201	19	2.7	18	82	17	68	29	0	0	70	0.87
209151--209203	12	4.2	12	79	15	63	30	0	0	69	0.88
209151--209203	17	2.8	19	77	16	65	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
211818--211897	28	2.9	27	73	15	74	25	6	1	67	1.21
212180--212212	9	3.3	10	87	12	50	27	0	0	72	0.85
212180--212217	20	2.0	20	89	5	60	34	0	0	65	0.93
212423--212472	19	2.8	19	76	11	52	52	0	0	48	1.00
212515--212547	17	2.0	17	88	5	50	45	6	3	45	1.43
215054--215080	1	27.0	1	100	0	54	100	0	0	0	0.00
217619--217675	28	2.0	28	83	10	71	54	3	3	38	1.35
221470--221500	4	8.0	4	92	7	55	22	0	0	77	0.77
223264--223296	2	16.5	2	100	0	66	48	0	0	51	1.00
223375--223411	2	18.5	2	88	0	56	2	43	0	54	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16