genome.fa.s163.2.7.7.80.10.50.1000.3.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: Scaffold163
Parameters: 2 7 7 80 10 50 1000
Length:  1788591

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

This is table  3  of  13  ( 1505 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)
222889--222936	14	3.5	13	81	10	51	56	0	2	41	1.11
228347--228401	23	2.4	23	78	6	58	72	3	1	21	1.09
228426--228464	19	2.1	19	90	0	60	74	0	5	20	1.01
233985--234012	14	2.0	14	100	0	56	35	0	0	64	0.94
233951--234024	17	4.4	16	74	11	60	37	0	0	62	0.96
234057--234161	52	2.0	52	92	0	174	42	17	17	22	1.88
241429--241593	83	2.0	84	92	1	278	24	21	27	26	1.99
241824--241872	9	5.2	9	81	16	55	61	2	0	36	1.08
241860--241903	9	5.0	9	83	2	54	43	2	0	54	1.12
241826--241886	20	2.9	23	79	18	69	55	3	0	40	1.16
241938--242010	26	2.8	28	73	12	73	52	1	1	45	1.18
241986--242041	27	2.0	28	83	10	71	50	0	0	50	1.00
243460--243541	43	1.9	43	94	0	146	28	25	13	32	1.93
246217--246413	101	2.0	101	92	0	331	32	9	5	52	1.56
252235--252449	34	6.4	34	83	1	236	26	7	24	41	1.81
252235--252449	102	2.1	101	87	0	304	26	7	24	41	1.81
256863--257081	34	6.5	34	85	2	280	25	7	26	41	1.81
256863--257081	102	2.2	101	89	1	339	25	7	26	41	1.81
262609--262654	13	3.4	13	83	16	58	39	0	0	60	0.97
262818--262872	19	2.9	18	83	8	65	50	1	0	47	1.11
263226--263259	2	17.0	2	100	0	68	50	0	0	50	1.00
265432--265472	21	2.0	21	85	9	57	46	4	7	41	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
265825--265865	21	2.0	21	85	0	55	36	2	0	60	1.10
267976--268052	33	2.4	30	78	14	82	38	1	0	59	1.06
267996--268048	18	3.1	18	82	12	60	43	1	0	54	1.11
268025--268054	15	1.9	16	93	6	53	46	0	0	53	1.00
268669--268762	44	2.1	45	80	9	104	38	14	2	44	1.58
269543--269590	18	2.8	17	87	3	69	31	0	0	68	0.90
270391--270471	14	5.3	16	71	27	52	41	0	0	58	0.98
270411--270473	27	2.3	27	86	10	83	39	0	0	60	0.97
270388--270452	22	3.0	22	70	4	60	40	0	0	60	0.97
270422--270476	20	2.8	20	78	8	67	38	0	0	61	0.96
271347--271376	15	1.9	16	93	6	53	53	0	6	40	1.27
271637--271678	16	2.6	16	84	0	57	50	0	0	50	1.00
273563--273605	10	4.4	10	82	5	61	0	20	0	79	0.74
273563--273605	15	2.9	15	89	3	70	0	20	0	79	0.74
273544--273605	22	2.9	22	81	11	67	1	24	0	74	0.91
274114--274144	2	15.5	2	100	0	62	51	0	0	48	1.00
277077--277144	29	2.4	29	79	11	79	54	5	0	39	1.25
277076--277146	28	2.6	26	76	12	70	56	5	0	38	1.23
278284--278338	17	3.1	18	77	17	53	65	3	0	30	1.10
278285--278324	20	2.1	18	86	9	53	72	2	0	25	0.97
278347--278400	20	2.7	19	77	8	63	48	5	0	46	1.25
278328--278359	2	16.0	2	100	0	64	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)
278850--279010	17	8.7	19	74	18	103	39	1	0	59	1.06
278850--279010	44	3.6	45	73	17	154	39	1	0	59	1.06
278850--279010	11	15.3	11	69	19	94	39	1	0	59	1.06
278906--278959	18	3.1	18	81	2	65	48	0	0	51	1.00
281553--281615	32	2.0	32	90	0	99	44	11	25	19	1.83
286735--286761	1	27.0	1	100	0	54	100	0	0	0	0.00
288038--288108	22	3.2	22	70	18	58	52	1	0	46	1.09
289835--289886	21	2.5	22	81	15	65	40	1	0	57	1.10
290270--290294	2	12.5	2	100	0	50	48	0	0	52	1.00
290342--290382	21	1.9	22	85	14	59	39	2	0	58	1.11
290341--290389	22	2.2	22	79	13	57	40	2	0	57	1.10
290423--290475	18	3.1	18	70	22	51	50	0	0	49	1.00
290463--290501	8	4.9	8	81	12	53	61	0	0	38	0.96
290448--290515	27	2.6	26	75	13	68	51	0	0	48	1.00
290448--290518	24	2.8	25	72	20	67	50	0	0	49	1.00
290574--290610	9	4.0	9	89	6	56	62	0	0	37	0.96
290568--290610	19	2.2	19	87	4	59	65	0	0	34	0.93
290647--290672	2	13.0	2	100	0	52	50	0	0	50	1.00
291340--291393	16	3.5	15	75	25	58	29	9	3	57	1.47
291795--291841	10	4.6	10	82	15	60	48	0	0	51	1.00
291908--291942	13	2.6	13	90	4	52	48	0	5	45	1.26
293619--293660	21	2.0	22	86	13	61	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294920--295006	40	2.2	40	83	8	106	32	12	17	37	1.87
295181--295232	25	2.2	24	83	10	63	38	1	1	57	1.21
295961--295992	2	16.0	2	100	0	64	50	0	0	50	1.00
297239--297276	18	2.1	18	95	5	67	50	0	0	50	1.00
297640--297667	2	14.0	2	100	0	56	50	0	0	50	1.00
297801--297831	2	15.5	2	93	0	53	54	0	0	45	0.99
300784--300860	34	2.2	35	78	13	88	42	1	2	53	1.23
300784--300864	35	2.3	35	81	10	96	41	1	2	54	1.21
302815--302854	21	1.9	21	89	0	62	12	20	10	57	1.63
303168--303211	23	1.9	23	100	0	88	45	13	0	40	1.44
303810--303849	7	5.7	7	100	0	80	87	0	0	12	0.54
305042--305139	27	3.7	26	76	23	91	36	0	1	62	1.02
305042--305165	6	19.1	7	67	25	53	37	0	1	59	1.13
305039--305167	52	2.5	53	78	16	135	37	1	1	59	1.16
305476--305545	24	3.0	23	74	25	67	47	0	1	51	1.09
306597--306640	20	2.1	22	87	8	65	65	0	0	34	0.93
309456--309498	23	2.0	21	90	9	68	72	9	0	18	1.11
310176--310224	19	2.6	20	87	6	59	69	4	0	26	1.06
310183--310228	19	2.4	20	89	10	78	69	4	0	26	1.07
310712--310808	26	3.7	26	77	8	90	41	2	1	55	1.18
310713--310758	13	3.4	14	72	22	53	41	0	0	58	0.98
310787--310823	19	2.0	18	89	5	56	32	5	0	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
311568--311606	11	3.5	11	89	0	60	64	0	0	35	0.94
311920--312051	5	28.4	5	65	17	52	36	1	0	62	1.05
311925--312045	14	7.8	15	68	22	65	36	1	0	61	1.06
311910--312026	9	12.7	9	71	22	57	38	1	0	59	1.07
312019--312064	17	2.6	17	86	6	65	28	0	0	71	0.86
312721--312878	11	14.7	11	70	20	70	41	1	1	56	1.15
313337--313400	6	10.3	6	80	12	76	64	0	0	35	0.94
313339--313411	32	2.3	32	86	6	96	64	0	0	35	0.94
313336--313410	38	2.0	38	92	5	125	64	0	0	36	0.94
313822--313850	2	14.5	2	100	0	58	51	0	48	0	1.00
318482--318515	4	8.8	4	93	6	61	0	23	0	76	0.79
318947--318980	15	2.2	16	89	5	52	44	5	2	47	1.42
319023--319076	22	2.5	22	79	14	58	35	0	0	64	0.94
319030--319090	18	3.3	18	77	8	61	37	1	0	60	1.07
319514--319557	21	2.1	21	83	8	54	40	0	2	56	1.11
319621--319692	17	4.2	16	81	13	65	65	0	0	34	0.93
319632--319692	19	3.4	18	78	17	65	62	0	0	37	0.96
319621--319692	9	8.3	9	78	15	73	65	0	0	34	0.93
320850--320900	18	2.8	18	75	16	52	45	0	0	54	0.99
320958--320991	18	1.9	18	88	5	52	55	0	0	44	0.99
321916--321961	19	2.4	19	89	7	67	63	0	0	36	0.95
326111--326177	9	7.0	11	73	23	55	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
326104--326177	28	2.7	28	75	21	75	60	0	0	39	0.97
326113--326197	20	4.7	18	72	20	61	60	0	0	40	0.97
326103--326227	25	4.7	25	75	17	101	60	0	0	40	0.97
326140--326227	39	2.3	39	84	11	119	60	0	0	39	0.97
326122--326226	14	7.9	14	73	21	75	60	0	0	39	0.97
326454--326542	22	4.0	23	74	15	80	41	0	0	58	0.98
326454--326501	16	3.1	15	80	19	55	33	0	0	66	0.92
326454--326510	30	1.9	30	82	7	71	35	0	0	64	0.93
326493--326533	20	2.0	20	90	9	66	56	0	0	43	0.99
326479--326544	20	3.0	23	68	20	59	46	0	0	53	1.00

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