genome.fa.s356.2.7.7.80.10.50.1000.3.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: Scaffold356
Parameters: 2 7 7 80 10 50 1000
Length:  432500

Tables:   1   2   3   4   

This is table  3  of  4  ( 415 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)
250709--250840	14	9.9	14	68	21	61	45	0	0	54	0.99
251024--251076	16	3.6	14	79	16	54	47	3	0	49	1.19
251024--251077	14	3.7	14	79	15	56	46	3	0	50	1.19
251263--251290	4	7.0	4	100	0	56	25	0	0	75	0.81
251832--251901	31	2.4	30	81	11	83	55	0	1	42	1.08
252200--252252	19	3.1	17	82	15	65	56	0	0	43	0.99
252214--252252	18	2.1	18	90	4	60	56	0	0	43	0.99
252513--252545	11	2.8	12	86	9	50	36	0	0	63	0.95
252511--252646	17	8.1	16	66	28	52	40	0	2	55	1.20
252646--252769	16	7.8	16	68	16	78	51	12	4	32	1.57
252646--252769	64	1.9	64	79	12	139	51	12	4	32	1.57
254654--254703	20	2.5	20	83	3	55	40	0	0	60	0.97
255038--255110	17	4.2	16	74	19	67	46	0	1	52	1.09
259477--259606	69	1.9	69	87	3	190	40	6	6	46	1.54
261218--261248	2	15.5	2	93	0	53	0	3	45	51	1.17
262526--262568	22	2.0	22	85	0	59	53	2	2	41	1.26
262735--262827	30	3.2	28	74	16	82	46	2	1	50	1.20
263065--263108	2	22.0	2	85	0	52	50	9	0	40	1.34
265127--265415	50	5.8	51	78	7	270	32	18	14	33	1.92
265127--265405	150	1.9	150	82	3	355	32	18	14	34	1.92
265714--265755	21	2.0	21	86	9	59	69	0	0	30	0.89
268727--268775	25	2.0	24	84	4	62	42	4	8	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
269419--269466	23	2.0	22	84	11	60	47	0	0	52	1.00
269458--269512	5	11.0	5	75	13	51	34	0	1	63	1.05
269455--269506	23	2.2	23	86	6	68	36	0	1	61	1.07
269469--269522	28	1.9	28	85	7	74	37	1	0	61	1.07
271559--271659	48	2.1	47	82	8	125	49	0	0	49	1.07
281944--281987	2	22.0	2	100	0	88	50	0	0	50	1.00
285844--285875	2	16.0	2	100	0	64	50	0	0	50	1.00
289095--289127	10	3.3	10	87	12	50	51	0	0	48	1.00
290439--290492	14	3.8	15	73	14	60	35	0	0	64	0.94
290439--290517	27	3.0	28	80	9	85	34	0	0	65	0.93
290481--290526	20	2.2	20	88	7	65	34	0	0	65	0.93
291071--291107	17	2.2	18	90	9	60	59	0	0	40	0.97
291673--291755	30	2.9	28	75	20	82	54	1	0	44	1.08
291673--291826	18	8.3	19	67	24	82	55	0	0	44	1.04
294089--294150	21	2.9	21	76	11	63	59	1	0	38	1.07
294331--294386	27	2.1	27	96	0	103	51	10	3	33	1.54
297564--297598	17	2.1	17	100	0	70	31	17	11	40	1.85
299641--299721	25	3.4	24	77	14	80	39	0	1	59	1.05
299636--299708	24	3.1	24	81	12	73	36	0	1	61	1.05
299729--299769	16	2.6	16	82	17	50	68	0	0	31	0.90
299794--299834	19	2.2	19	86	8	57	48	2	0	48	1.14
299822--299864	20	2.0	22	86	8	63	30	0	2	67	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
299902--299944	22	2.0	20	86	8	59	55	2	0	41	1.12
299960--300040	37	2.1	39	84	8	105	54	2	1	41	1.21
300021--300051	16	1.9	16	93	0	53	48	0	3	48	1.17
300193--300270	26	2.8	26	84	11	86	51	1	2	44	1.23
300185--300281	30	3.4	28	73	20	85	53	1	2	43	1.19
305169--305384	34	6.4	34	73	6	118	43	18	5	31	1.73
305162--305384	67	3.3	67	77	7	168	44	18	5	31	1.72
305163--305384	101	2.2	100	78	11	238	44	18	5	31	1.72
305567--305634	26	2.7	25	78	19	70	51	0	2	45	1.16
305566--305635	24	2.9	23	75	25	72	50	0	2	47	1.16
305877--305929	13	4.2	13	73	9	56	52	0	0	47	1.00
305849--305899	20	2.4	21	77	9	59	50	0	0	49	1.00
305860--305929	35	1.9	36	82	5	88	50	0	0	50	1.00
306345--306374	7	4.3	7	100	0	60	40	0	0	60	0.97
308199--308233	2	17.5	2	100	0	70	51	0	0	48	1.00
308998--309033	2	18.0	2	100	0	72	50	0	0	50	1.00
317860--317957	39	2.8	36	85	14	118	39	1	0	59	1.04
317885--317950	15	4.1	14	71	28	51	34	0	0	65	0.93
318576--318627	23	2.2	23	81	18	63	51	1	1	44	1.23
318888--318951	13	5.3	13	70	24	59	48	0	1	50	1.10
319402--319499	35	2.8	36	75	9	112	44	0	0	55	0.99
319407--319503	25	4.0	27	73	24	74	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319410--319541	62	2.2	60	83	9	169	46	0	0	53	1.00
324101--324148	18	2.6	17	84	12	60	62	0	2	35	1.07
324086--324140	28	1.9	29	85	3	76	60	0	1	38	1.08
324088--324150	19	3.4	18	79	14	67	60	0	1	38	1.07
324131--324206	36	2.1	37	92	2	127	43	0	0	56	0.99
324378--324425	17	2.6	18	83	9	62	68	2	0	29	1.01
325022--325100	27	2.9	28	84	7	108	55	0	0	44	0.99
325056--325097	20	2.0	22	86	9	61	50	0	0	50	1.00
325027--325122	29	3.5	27	77	12	90	55	0	0	44	0.99
325087--325147	20	3.0	19	81	16	61	52	3	0	44	1.17
325016--325133	29	4.2	29	76	15	74	55	0	0	44	0.99
325008--325137	27	5.1	27	68	26	63	55	0	0	44	0.99
326323--326364	16	2.6	17	88	11	70	50	0	0	50	1.00
330680--330715	17	2.1	17	94	0	63	47	8	0	44	1.33
333387--333414	2	14.0	2	100	0	56	50	0	0	50	1.00
333811--333876	33	2.0	33	100	0	132	48	12	6	33	1.65
336887--336935	22	2.2	22	85	0	62	40	6	0	53	1.26
340089--340117	13	2.1	14	93	6	51	55	0	0	44	0.99
342118--342159	6	6.3	7	91	8	54	54	0	0	45	0.99
342128--342159	6	5.2	6	96	3	55	53	0	0	46	1.00
342240--342275	2	18.0	2	100	0	72	50	0	0	50	1.00
342425--342486	15	4.2	15	74	15	58	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342420--342504	31	2.8	30	75	15	84	36	0	0	63	0.95
342721--342767	3	15.7	3	86	0	67	2	4	29	63	1.25
343013--343046	2	17.0	2	100	0	68	50	0	0	50	1.00
343327--343351	3	8.3	3	100	0	50	64	0	0	36	0.94
349847--349881	2	17.5	2	100	0	70	48	0	0	51	1.00
352079--352112	3	11.3	3	100	0	68	32	0	0	67	0.91
352221--352262	14	3.1	14	76	13	52	50	0	2	47	1.14
352408--352458	23	2.2	23	85	0	66	50	7	3	37	1.50
352460--352533	19	3.8	19	77	15	71	72	2	0	24	0.97
352486--352535	17	2.9	16	75	16	55	70	2	0	28	0.99
352574--352626	26	2.0	27	82	10	65	50	1	0	47	1.12
352839--352890	25	2.1	24	85	3	68	44	1	0	53	1.11
352855--352906	17	3.0	17	75	11	52	44	1	0	53	1.11
352942--352975	11	3.0	11	91	4	50	41	2	0	55	1.15
353313--353348	5	6.8	5	87	12	54	41	0	2	55	1.14
353313--353374	10	6.0	10	75	7	52	41	0	4	53	1.22
353311--353380	16	4.4	16	71	10	63	42	0	4	52	1.20
353475--353529	16	3.4	15	80	12	56	54	1	5	38	1.34
353722--353774	16	3.3	16	78	0	70	64	1	0	33	1.05
353707--353788	32	2.6	32	82	0	101	62	8	1	28	1.32
354653--354745	38	2.4	38	85	0	123	39	9	9	40	1.71
354934--354980	19	2.5	19	100	0	94	46	4	0	48	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355338--355382	2	22.5	2	100	0	90	48	0	0	51	1.00
356247--356292	19	2.4	19	92	0	74	43	2	2	52	1.25
356651--356682	2	16.0	2	100	0	64	50	0	0	50	1.00
356910--356942	11	2.9	12	91	8	52	51	0	0	48	1.00
356919--356993	40	1.9	38	84	15	100	50	1	0	48	1.09
357305--357363	11	5.4	11	78	13	68	62	0	0	37	0.95
357308--357357	16	3.0	16	76	21	57	66	0	0	34	0.92
357315--357391	20	3.9	20	71	20	72	61	0	0	38	0.96
357315--357418	29	3.6	29	79	17	101	59	0	0	40	0.97
357303--357416	34	3.5	32	74	20	112	59	0	0	40	0.97

Tables:   1   2   3   4