genome.fa.s258.2.7.7.80.10.50.1000.2.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  2  of  25  ( 2900 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)
143475--143518	2	22.0	2	95	0	79	50	2	47	0	1.13
151268--151293	6	4.3	6	100	0	52	84	0	0	15	0.62
152643--152673	1	31.0	1	93	0	53	0	96	0	3	0.21
154882--155130	124	2.0	124	98	0	480	45	18	9	26	1.79
164815--164847	2	16.5	2	100	0	66	51	0	0	48	1.00
172100--172141	2	21.0	2	100	0	84	0	50	0	50	1.00
172589--172619	2	15.5	2	100	0	62	51	0	0	48	1.00
190274--190303	3	10.0	3	100	0	60	33	0	0	66	0.92
191109--191142	5	6.8	5	86	0	50	0	41	0	58	0.98
191404--191442	5	7.8	5	88	0	60	0	41	0	58	0.98
191047--191643	300	2.0	295	93	4	1013	29	22	9	39	1.85
192968--192996	2	14.5	2	100	0	58	51	0	0	48	1.00
193554--193583	2	15.0	2	100	0	60	50	0	0	50	1.00
193817--193844	2	14.0	2	100	0	56	50	0	0	50	1.00
194270--194302	2	16.5	2	100	0	66	0	48	0	51	1.00
194916--194940	3	8.3	3	100	0	50	32	32	0	36	1.58
197621--197652	12	2.7	12	95	0	55	46	0	0	53	1.00
198898--198941	10	4.4	10	82	0	52	2	31	2	63	1.19
200958--200992	2	17.5	2	100	0	70	51	0	0	48	1.00
201067--201107	3	13.7	3	100	0	82	34	0	0	65	0.93
202284--202327	21	2.3	18	84	11	52	22	4	0	72	1.02
204423--204501	27	3.0	27	76	23	87	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
204439--204502	18	3.3	18	73	25	58	42	0	0	57	0.98
206461--206495	3	11.7	3	87	0	52	62	0	0	37	0.95
208966--208993	2	14.0	2	100	0	56	50	0	0	50	1.00
212590--212617	3	9.3	3	100	0	56	67	0	0	32	0.91
213588--213613	2	13.0	2	100	0	52	50	0	0	50	1.00
221244--221299	16	3.5	15	76	13	51	39	0	1	58	1.08
221263--221347	2	46.5	2	76	21	80	52	2	0	44	1.13
221247--221348	30	3.3	31	76	15	97	49	1	0	48	1.19
221419--221462	18	2.4	18	79	20	56	18	6	0	75	1.02
221640--221718	7	10.7	7	74	17	63	41	1	2	54	1.22
221651--221717	2	36.5	2	73	21	58	43	1	1	53	1.19
221652--221713	31	1.9	33	87	9	92	43	1	1	53	1.20
222419--222452	16	2.1	17	88	5	52	55	0	0	44	0.99
222449--222492	17	2.5	18	85	10	56	34	0	0	65	0.93
227892--228007	27	4.2	28	68	20	84	38	0	0	59	1.09
227889--227987	46	2.1	48	81	9	123	38	1	1	59	1.11
227935--227974	18	2.2	19	86	4	55	30	2	0	67	1.04
227874--228182	156	1.9	164	87	9	456	35	2	5	57	1.34
234655--234696	21	2.0	21	86	9	59	71	2	0	26	0.98
235210--235252	2	22.0	2	90	4	70	46	0	2	51	1.13
239866--239937	22	3.2	22	80	20	87	68	0	1	30	0.99
239877--239951	22	3.4	22	78	14	82	66	0	1	32	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
239866--239990	23	5.5	23	70	19	84	61	0	0	36	1.07
239866--240027	35	4.8	33	72	18	111	61	0	1	37	1.09
250653--250677	4	6.2	4	100	0	50	0	0	24	76	0.80
251997--252026	3	10.0	3	92	0	51	36	0	0	63	0.95
252392--252426	16	2.2	16	89	0	52	60	0	0	40	0.97
253102--253147	24	1.9	24	86	0	65	36	2	0	60	1.09
253262--253286	6	4.2	6	100	0	50	48	0	0	52	1.00
253296--253329	18	1.9	18	94	5	61	82	0	0	17	0.67
256996--257028	3	11.0	3	100	0	66	33	0	0	66	0.92
267049--267123	20	3.8	20	76	3	71	41	12	12	34	1.79
267046--267123	40	2.0	39	84	2	102	41	12	11	34	1.80
270056--270146	10	9.1	10	71	8	69	39	1	1	58	1.13
270079--270130	20	2.7	20	90	3	79	44	0	0	55	0.99
270093--270150	30	1.9	30	86	6	82	34	1	0	63	1.04
270120--270158	20	2.0	20	84	0	51	30	2	2	64	1.21
290060--290092	17	1.9	17	100	0	66	69	0	0	30	0.88
295764--295793	2	15.0	2	100	0	60	50	0	50	0	1.00
300623--300649	14	1.9	14	100	0	54	88	0	11	0	0.50
304593--304631	21	1.9	20	89	5	60	25	7	41	25	1.82
310152--310190	8	4.8	8	81	6	51	20	0	0	79	0.73
310165--310189	9	2.8	9	100	0	50	20	0	0	80	0.72
314225--314249	11	2.3	11	100	0	50	0	28	0	72	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317476--317515	20	2.0	20	100	0	80	35	0	15	50	1.44
317494--317608	40	2.9	40	82	0	113	37	6	19	36	1.79
318521--318570	24	2.1	24	88	0	73	28	6	22	44	1.76
322692--322738	20	2.3	20	85	7	60	29	12	21	36	1.91
322706--322819	10	11.4	10	73	12	65	29	9	26	34	1.88
322704--322838	40	3.4	39	83	10	157	30	8	28	32	1.87
323748--323797	24	2.1	24	92	0	82	26	6	24	44	1.76
329911--330023	57	2.0	57	98	0	217	35	21	14	29	1.92
330203--330316	57	2.0	57	100	0	228	35	22	14	28	1.93
329800--330845	293	3.6	293	98	0	2020	37	15	13	32	1.87
330496--330609	57	2.0	57	98	0	219	35	22	14	27	1.93
330553--331081	236	2.2	236	98	0	1022	36	15	13	33	1.88
330260--333019	529	5.1	529	77	11	3092	36	15	14	33	1.88
330789--331666	293	3.0	293	98	0	1695	36	16	14	32	1.88
331025--331138	57	2.0	57	100	0	228	35	22	14	28	1.93
331318--331431	57	2.0	57	98	0	219	35	21	14	28	1.92
329967--333312	822	4.1	823	98	0	6428	36	15	14	33	1.88
331375--331902	235	2.2	236	98	0	1022	36	15	14	33	1.88
331846--331959	57	2.0	57	100	0	228	35	22	14	28	1.93
332140--332253	57	2.0	57	98	0	219	35	21	14	28	1.92
332197--332725	236	2.2	236	98	0	1013	36	15	14	33	1.88
332669--332782	57	2.0	57	96	0	210	35	21	14	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
332963--333076	57	2.0	57	94	0	201	35	21	14	28	1.93
332433--333488	293	3.6	293	96	0	1977	35	15	14	33	1.89
333256--333369	57	2.0	57	98	0	219	35	21	14	28	1.93
334293--334390	13	6.9	14	71	22	71	40	0	0	59	0.98
334312--334389	22	3.5	22	76	15	70	41	0	0	58	0.98
334329--334358	15	1.9	16	93	6	53	46	0	0	53	1.00
339883--339972	16	5.6	16	70	17	62	28	7	10	53	1.62
339885--339971	32	2.7	31	80	7	95	28	8	9	54	1.61
340330--340370	20	2.1	19	86	13	57	29	0	7	63	1.21
346985--347023	3	13.0	3	100	0	78	0	33	0	66	0.92
350097--350144	2	25.5	2	81	12	57	50	4	0	45	1.21
357052--357115	29	2.2	29	88	0	92	48	7	12	31	1.69
361158--361182	7	3.6	7	100	0	50	56	0	0	44	0.99
361284--361333	20	2.5	20	80	9	66	52	0	2	46	1.12
361733--361780	16	3.1	15	76	8	51	56	0	0	43	0.99
361896--361956	22	2.7	24	69	21	60	60	0	1	37	1.07
361916--361953	13	2.9	13	84	7	51	73	0	0	26	0.83
362135--362185	23	2.2	23	85	3	66	58	0	0	41	0.98
362197--362256	31	2.0	30	83	3	75	55	1	5	38	1.32
370378--370798	208	2.0	210	98	0	810	29	22	17	30	1.97
375140--375166	2	13.5	2	100	0	54	51	0	0	48	1.00
380271--380330	8	7.8	8	83	7	70	36	0	13	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380275--380330	12	4.8	12	86	4	80	35	0	14	50	1.43
389784--389819	13	2.8	13	82	0	54	0	13	0	86	0.58
390054--390117	32	2.0	32	100	0	128	28	9	25	37	1.87
393680--393727	13	3.5	14	77	11	55	39	2	0	58	1.10
395082--395159	30	2.6	30	75	17	79	47	1	0	51	1.09
395636--395664	3	9.7	3	100	0	58	65	0	0	34	0.93
396091--396130	7	5.7	7	96	0	62	82	0	5	12	0.82
396090--396136	14	3.4	14	79	8	51	78	4	6	10	1.06
396090--396136	21	2.2	21	80	0	58	78	4	6	10	1.06
400593--400632	6	6.8	6	88	2	55	30	15	52	2	1.55

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25