genome.fa.s629.2.7.7.80.10.50.1000.3.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: Scaffold629
Parameters: 2 7 7 80 10 50 1000
Length:  578285

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 488 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)
280737--280773	10	3.6	10	96	3	65	89	0	8	2	0.58
285500--285617	20	5.8	20	77	5	110	38	13	13	33	1.84
285500--285625	40	3.1	40	86	3	144	38	15	13	33	1.86
288143--288176	10	3.3	10	88	8	50	47	8	0	44	1.34
289551--290022	28	16.5	28	87	3	593	22	16	31	30	1.96
289551--290028	114	4.2	113	86	6	624	22	16	31	30	1.95
289551--290022	142	3.3	141	87	4	635	22	16	31	30	1.96
291242--291312	11	6.6	10	76	13	54	2	1	11	84	0.79
291242--291317	12	5.8	12	74	18	62	2	1	13	82	0.83
291242--291314	28	2.6	27	81	12	85	2	1	10	84	0.78
291271--291313	11	3.7	11	88	11	68	0	0	11	88	0.52
295197--295222	13	2.0	13	100	0	52	30	15	15	38	1.88
295285--295336	20	2.6	20	87	6	70	26	15	15	42	1.87
297592--297638	21	2.3	21	76	23	55	42	4	19	34	1.70
297759--297797	13	3.0	13	96	0	69	35	15	17	30	1.91
297783--297861	20	3.7	20	78	15	77	44	15	15	25	1.85
299869--299899	15	2.1	15	93	0	53	12	22	16	48	1.80
301703--301747	21	2.1	21	84	8	56	22	20	4	53	1.63
305240--305265	13	2.0	13	100	0	52	7	38	30	23	1.83
307477--307553	20	3.8	20	83	6	102	40	11	15	32	1.84
309825--309863	20	1.9	21	94	5	71	46	20	12	20	1.83
312054--312100	21	2.2	21	96	0	85	57	0	19	23	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
312117--312156	21	1.9	21	85	10	55	55	12	15	17	1.70
312649--312674	13	2.0	13	100	0	52	38	15	15	30	1.88
312631--312694	32	2.0	33	87	3	94	40	17	14	28	1.88
313132--313198	37	1.9	35	88	11	102	32	11	25	29	1.92
317965--317990	13	2.0	13	100	0	52	38	15	15	30	1.88
317947--318010	32	2.0	33	87	3	94	40	17	14	28	1.88
318448--318514	37	1.9	35	88	11	102	32	11	25	29	1.92
322206--322239	11	3.2	11	87	8	52	0	23	0	76	0.79
322206--322238	12	2.8	12	90	4	50	0	21	0	78	0.75
322553--322578	5	5.2	5	100	0	52	80	0	0	19	0.71
322793--323551	334	2.3	333	81	6	894	50	8	11	29	1.68
322787--323550	166	4.6	166	83	6	864	50	8	11	29	1.68
324832--324872	20	2.1	19	86	13	57	9	2	7	80	0.99
324820--324879	29	2.2	29	88	8	90	11	3	6	78	1.06
324895--324928	6	5.7	6	85	0	50	64	2	2	29	1.22
325256--325337	33	2.5	33	86	4	103	37	20	9	31	1.85
325492--325595	24	4.2	24	72	11	68	42	17	14	25	1.87
325608--325712	24	4.4	24	81	0	111	28	14	24	32	1.94
325624--325723	48	2.1	48	81	3	112	28	17	21	34	1.95
325668--325723	24	2.3	24	81	0	76	30	19	17	32	1.95
326912--327253	166	2.1	166	82	7	410	30	11	8	49	1.69
327706--327757	20	2.7	19	90	3	77	34	15	15	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328798--328822	13	1.9	13	100	0	50	36	16	16	32	1.90
328778--328841	32	2.0	33	93	3	112	34	14	18	32	1.91
328777--328860	19	4.7	19	78	18	99	33	13	17	35	1.89
328901--328925	13	1.9	13	100	0	50	32	16	16	36	1.90
329806--329852	21	2.3	20	82	13	60	21	17	19	42	1.89
331948--331975	13	2.2	13	100	0	56	39	17	14	28	1.89
331930--331995	33	2.0	33	88	5	98	40	13	15	30	1.85
331962--332017	20	2.8	20	100	0	112	39	10	14	35	1.81
334665--334719	20	2.8	20	88	0	74	32	21	10	34	1.89
334705--334732	13	2.2	13	100	0	56	39	14	14	32	1.86
337800--337919	51	2.4	51	82	0	159	33	11	25	29	1.91
337748--337997	130	1.9	133	86	5	364	34	11	25	28	1.91
337981--338053	27	2.7	27	84	2	83	20	21	34	23	1.97
337852--338029	79	2.3	79	88	2	250	32	14	26	26	1.95
338038--338273	102	2.3	103	87	3	334	32	11	25	29	1.92
338036--338273	51	4.6	51	83	3	300	32	12	26	29	1.92
340635--340660	13	2.0	13	100	0	52	38	15	15	30	1.88
340713--340764	19	2.6	21	87	6	72	34	15	11	38	1.83
341699--342409	79	9.1	79	77	9	521	35	12	22	28	1.91
341708--342409	158	4.5	158	79	7	644	34	12	23	29	1.92
341788--342409	237	2.7	232	82	4	723	35	12	22	29	1.92
352490--352560	34	2.1	35	84	7	92	54	12	15	16	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354870--354944	26	3.3	20	72	24	60	44	0	0	56	0.99
355266--355301	11	3.3	11	88	0	54	36	0	0	63	0.94
356750--357337	174	3.4	174	81	3	655	40	11	12	34	1.80
357247--357398	61	2.5	61	82	0	169	43	13	7	35	1.72
358028--358056	14	2.0	15	93	6	51	68	0	10	20	1.18
358949--359006	20	3.0	19	82	5	80	41	1	0	56	1.09
360550--360588	2	19.5	2	100	0	78	0	51	0	48	1.00
361333--361360	13	2.2	13	100	0	56	28	0	0	71	0.86
361399--361423	13	1.9	13	100	0	50	64	4	0	32	1.12
361908--361991	41	2.1	40	93	2	141	26	16	10	46	1.80
364873--364924	24	2.2	24	83	13	63	30	3	1	63	1.23
366776--367078	153	2.0	156	79	6	339	27	14	17	40	1.88
371917--371983	33	2.0	33	88	0	98	34	11	13	40	1.81
371937--371961	13	1.9	13	100	0	50	36	16	16	32	1.90
372024--372048	13	1.9	13	100	0	50	32	16	16	36	1.90
372057--372186	52	2.5	52	91	3	201	33	19	16	31	1.94
385786--385872	1	87.0	1	72	0	66	86	9	4	0	0.71
385786--385871	17	4.8	17	79	12	84	86	9	4	0	0.71
385786--385870	20	4.3	19	83	8	91	85	9	4	0	0.72
385787--385872	29	3.0	29	80	11	88	86	9	4	0	0.71
385786--385872	37	2.4	37	84	3	104	86	9	4	0	0.71
389274--389402	52	2.5	52	93	0	213	29	18	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389274--389422	52	2.9	52	89	2	183	30	18	17	33	1.94
389411--389435	13	1.9	13	100	0	50	36	16	16	32	1.90
389476--389573	19	5.8	18	71	28	90	36	17	12	33	1.87
389495--389551	13	3.9	13	76	24	60	33	17	14	35	1.90
389474--389571	32	3.0	32	96	1	178	35	17	12	34	1.87
391099--391576	32	14.9	32	84	7	514	28	29	19	21	1.98
396670--396724	21	2.7	21	85	2	67	41	10	16	30	1.83
397848--397885	16	2.4	17	82	13	53	23	5	2	68	1.23
399127--399517	154	2.5	157	78	14	408	32	8	7	50	1.61
399216--399836	153	4.1	150	77	8	520	32	10	8	48	1.67
401833--402230	156	2.6	150	81	5	397	26	14	20	38	1.91
401987--402281	156	1.9	157	86	3	425	24	13	22	39	1.90
406145--406199	14	4.2	13	82	17	69	29	0	1	69	0.99
406143--406200	26	2.3	27	80	17	70	32	0	1	65	1.03
410530--410566	19	1.9	19	94	0	65	83	2	13	0	0.74
411537--411747	112	1.9	113	86	4	302	34	17	13	35	1.88
413109--413361	44	5.8	44	73	10	144	22	24	14	38	1.91
413149--413362	87	2.4	87	79	6	227	22	23	14	38	1.91
413240--413405	88	1.9	87	80	9	194	20	23	16	39	1.91
413628--413765	42	3.3	43	70	15	117	18	26	13	42	1.87
413622--413865	84	2.9	85	79	7	302	18	26	12	42	1.86
413622--413865	83	2.9	82	79	8	280	18	26	12	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414176--414412	83	2.8	83	73	9	196	45	13	21	18	1.84
414850--415265	88	4.7	88	80	4	428	41	16	22	20	1.90
414938--415397	44	10.5	44	71	13	239	41	15	22	20	1.90
414852--415266	176	2.4	176	81	4	471	41	16	22	20	1.90
415119--415397	132	2.1	132	84	5	350	42	15	21	20	1.88
415033--415399	88	4.2	87	78	12	285	41	14	22	20	1.89
415253--415460	88	2.4	88	82	3	240	41	14	22	22	1.89
415583--415733	44	3.4	44	74	7	153	41	15	23	19	1.90
415460--415733	87	3.1	88	81	6	331	41	13	24	20	1.88
416033--416106	21	3.6	20	87	3	85	39	13	17	29	1.88

Tables:   1   2   3   4   5