genome.fa.s54.2.7.7.80.10.50.1000.2.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: Scaffold54
Parameters: 2 7 7 80 10 50 1000
Length:  3629595

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  2  of  20  ( 2342 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)
171673--171705	2	16.5	2	100	0	66	48	0	0	51	1.00
176643--176684	18	2.3	19	87	4	59	28	4	2	64	1.26
178629--178660	13	2.4	14	85	15	50	56	0	0	43	0.99
181417--181464	21	2.4	20	79	6	53	64	4	4	27	1.30
184151--184209	27	2.1	29	81	9	68	42	1	1	54	1.20
186928--186953	2	13.0	2	100	0	52	50	0	0	50	1.00
188017--188047	2	16.0	2	93	6	55	51	48	0	0	1.00
188047--188095	2	24.5	2	100	0	98	51	0	0	48	1.00
191718--191865	72	2.1	72	86	7	203	32	12	24	30	1.93
195221--195257	2	18.5	2	100	0	74	51	0	48	0	1.00
195495--195613	60	2.0	60	86	3	168	37	9	14	38	1.78
196753--196783	2	15.5	2	100	0	62	51	0	48	0	1.00
197015--197140	60	2.1	60	88	4	182	34	14	13	37	1.85
199287--199346	22	2.7	22	89	0	93	46	18	11	23	1.81
214429--214469	2	20.5	2	100	0	82	48	0	0	51	1.00
214682--214728	23	2.0	23	84	8	60	44	6	0	48	1.28
215097--215157	30	2.0	30	90	6	97	32	0	3	63	1.10
215111--215155	15	3.0	15	76	23	58	31	0	4	64	1.13
215563--215610	24	2.0	24	84	8	62	60	4	0	35	1.16
216077--216102	6	4.3	6	100	0	52	34	46	19	0	1.50
216121--216166	2	23.0	2	95	0	83	0	52	0	47	1.00
218096--218144	15	3.3	15	82	0	53	34	4	38	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
218090--218154	30	2.2	30	82	0	76	38	4	40	16	1.70
219342--219380	16	2.5	15	84	8	51	48	0	0	51	1.00
219798--219830	13	2.5	13	86	13	50	21	9	12	57	1.62
225095--225147	21	2.5	22	81	9	65	35	3	26	33	1.75
228479--228522	21	2.1	21	82	0	52	36	4	20	38	1.73
237960--238009	2	25.0	2	91	0	82	48	4	0	48	1.20
243145--243183	20	2.0	20	84	0	51	79	2	10	7	1.02
243289--243340	22	2.4	21	75	9	59	73	1	23	1	1.04
244619--244678	29	2.2	28	85	8	79	30	5	5	60	1.40
245422--245459	19	2.0	19	85	10	51	44	0	0	55	0.99
246614--246669	21	2.7	20	80	5	58	41	0	1	57	1.09
247254--247300	2	23.5	2	100	0	94	48	0	0	51	1.00
250879--250942	29	2.2	30	80	8	78	43	3	7	45	1.48
251334--251369	2	18.0	2	88	0	54	50	0	2	47	1.15
253132--253183	16	3.3	15	79	15	61	30	0	0	69	0.89
255022--255493	250	1.9	251	88	2	716	47	10	5	37	1.61
262097--262144	23	2.1	23	88	7	71	47	2	4	45	1.33
262206--262256	11	4.5	12	78	11	63	70	0	0	29	0.87
262206--262255	15	3.4	14	83	10	64	72	0	0	28	0.86
262213--262255	19	2.3	19	87	0	59	72	0	0	27	0.85
262473--262523	18	2.9	18	80	14	61	27	1	0	70	0.98
262473--262521	17	2.8	17	81	12	55	26	2	0	71	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
262475--262527	27	2.1	24	86	10	70	24	1	0	73	0.93
262497--262590	29	3.2	29	77	4	82	32	3	1	62	1.18
262540--262598	30	2.0	29	86	3	82	42	3	1	52	1.28
263339--263382	19	2.3	19	84	7	54	20	0	6	72	1.07
263776--263813	2	19.0	2	84	10	51	44	0	2	52	1.14
264788--264832	10	4.6	10	83	5	56	40	2	0	57	1.11
264772--264821	25	2.0	25	84	0	64	38	4	2	56	1.30
265395--265423	2	14.5	2	100	0	58	51	0	0	48	1.00
267928--267978	13	4.0	13	78	17	54	52	3	7	35	1.49
267929--267982	24	2.2	24	87	9	83	57	3	5	33	1.40
271613--271650	14	2.7	14	80	12	51	31	0	0	68	0.90
271695--271755	29	2.0	31	87	6	90	36	0	1	62	1.05
271695--271742	14	3.4	14	80	5	60	31	0	2	66	1.03
271696--271746	15	3.5	15	72	5	59	31	0	1	66	1.03
271804--271850	23	2.0	24	87	4	69	57	4	0	38	1.18
271843--271881	20	1.9	21	84	5	53	43	5	2	48	1.38
274170--274212	3	14.3	3	100	0	86	67	0	0	32	0.91
279651--279778	67	1.9	68	88	1	195	12	20	21	45	1.84
279927--279969	13	3.2	13	83	6	50	62	0	2	34	1.08
282024--282050	2	13.5	2	100	0	54	51	0	0	48	1.00
285665--285691	6	4.5	6	100	0	54	55	0	0	44	0.99
285743--285787	23	2.0	21	84	16	56	55	0	2	42	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
286543--286573	15	2.1	15	93	0	53	41	0	0	58	0.98
286547--286591	17	2.6	17	82	0	54	35	0	2	62	1.08
287428--287463	16	2.3	15	90	4	54	30	2	0	66	1.06
287549--287631	28	3.0	27	76	13	89	55	0	1	43	1.07
287621--287697	10	7.4	10	71	20	52	59	1	0	38	1.06
292221--292255	15	2.2	16	95	5	63	48	0	0	51	1.00
292219--292270	16	3.2	16	83	8	61	44	0	0	55	0.99
292219--292258	15	2.5	17	80	16	57	47	0	0	52	1.00
292261--292313	24	2.2	24	83	9	65	52	0	1	45	1.11
296113--296160	21	2.3	19	80	16	51	47	0	0	52	1.00
296294--296335	18	2.3	18	88	8	59	52	0	0	47	1.00
296294--296345	18	2.9	18	80	5	52	51	0	0	48	1.00
296330--296379	13	3.8	14	84	12	70	46	0	0	54	1.00
296621--296654	2	17.0	2	100	0	68	50	0	0	50	1.00
296851--296884	16	2.1	16	100	0	68	23	5	26	44	1.76
296991--297029	15	2.6	16	84	8	55	64	2	0	33	1.08
297248--297274	14	1.9	14	100	0	54	48	0	0	51	1.00
300519--300559	19	2.2	19	86	8	57	41	0	0	58	0.98
302401--302433	3	11.0	3	100	0	66	33	0	0	66	0.92
303954--303988	19	1.9	17	88	11	52	37	0	2	60	1.12
304380--304419	19	2.0	20	90	4	64	47	2	0	50	1.14
304830--304910	23	3.7	22	71	12	69	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304892--304916	9	2.8	9	100	0	50	44	0	0	56	0.99
306627--306666	3	13.3	3	100	0	80	65	0	0	35	0.93
307156--307228	11	7.3	10	77	13	53	43	0	2	53	1.15
309843--309869	14	1.9	14	100	0	54	44	22	7	25	1.79
316911--316971	20	2.8	22	80	12	72	57	0	3	39	1.15
316911--316971	21	2.8	21	78	16	63	57	0	3	39	1.15
316986--317016	16	2.0	16	93	6	55	61	0	0	38	0.96
317052--317079	10	2.8	10	100	0	56	71	0	0	28	0.86
317357--317391	14	2.5	14	90	9	54	60	0	0	40	0.97
317330--317388	28	2.1	29	80	3	66	54	0	0	45	0.99
317997--318027	3	10.7	3	93	6	55	29	0	0	70	0.87
318055--318117	20	3.1	21	80	8	60	57	3	39	0	1.15
318282--318313	8	3.9	8	95	4	55	28	0	0	71	0.86
318218--318382	85	1.9	85	93	0	285	30	1	6	61	1.27
318603--318644	22	2.0	21	86	13	59	57	2	0	40	1.12
319015--319092	15	5.6	14	68	22	56	53	1	1	43	1.16
323511--323560	23	2.2	22	82	13	57	50	0	0	50	1.00
323517--323571	23	2.3	24	84	3	76	56	0	0	43	0.99
323651--323685	16	2.2	16	100	0	70	45	11	11	31	1.76
324391--324476	14	5.5	14	69	22	55	31	1	1	66	1.07
326964--327021	29	2.1	26	90	9	89	41	8	5	44	1.57
334003--334055	28	1.9	27	85	11	72	49	0	1	49	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335784--335837	23	2.3	23	84	6	65	62	3	0	33	1.12
335798--335843	22	2.1	22	88	8	67	60	0	0	39	0.97
335798--335863	22	2.9	23	82	12	66	59	0	0	40	0.98
335845--335888	22	1.9	22	86	9	61	63	2	0	34	1.07
336640--336679	13	3.1	13	92	0	62	37	15	7	40	1.75
339837--339886	21	2.6	18	78	9	55	36	2	2	60	1.20
343027--343061	18	1.9	18	88	0	52	68	0	0	31	0.90
343398--343438	2	20.5	2	100	0	82	51	0	0	48	1.00
345749--345778	15	2.0	15	93	0	51	16	0	0	83	0.65
346824--346870	23	2.1	22	84	4	58	72	0	0	27	0.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20