genome.fa.s196.2.7.7.80.10.50.1000.31.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  31  of  47  ( 5587 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)
5089339--5089377	13	3.0	13	100	0	78	30	15	15	38	1.88
5091911--5091935	13	1.9	13	100	0	50	32	16	16	36	1.90
5091891--5091958	33	2.1	33	89	8	104	36	16	14	32	1.89
5093461--5093489	13	2.2	13	100	0	58	41	17	13	27	1.87
5098767--5098792	13	2.0	13	100	0	52	30	15	15	38	1.88
5098852--5098906	20	2.7	19	83	8	65	27	14	16	41	1.87
5099363--5099388	13	2.0	13	100	0	52	30	15	15	38	1.88
5099448--5099502	20	2.7	19	83	8	65	27	14	16	41	1.87
5098456--5099646	596	2.0	595	99	0	2364	30	15	17	36	1.91
5103370--5103403	16	2.1	16	88	0	50	38	11	0	50	1.39
5105677--5105720	21	2.1	21	83	8	54	25	31	4	38	1.76
5109365--5109762	198	2.0	198	99	0	787	27	22	15	34	1.94
5111662--5111706	21	2.1	21	84	8	56	22	20	4	53	1.63
5118345--5118397	20	2.6	21	82	8	65	28	15	16	39	1.89
5118385--5118409	13	1.9	13	100	0	50	36	16	16	32	1.90
5118419--5118457	20	2.0	19	95	5	69	30	10	23	35	1.88
5124970--5125008	13	3.0	13	92	0	60	30	17	17	33	1.94
5125120--5125166	21	2.3	20	82	10	60	31	19	4	44	1.70
5125120--5125173	22	2.5	21	82	14	58	29	22	3	44	1.70
5127435--5127490	21	2.7	21	80	2	69	30	17	16	35	1.92
5129478--5129520	20	2.1	20	82	4	50	11	30	41	16	1.83
5129795--5129841	21	2.3	21	82	10	62	44	4	19	31	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5137319--5137352	9	3.8	9	88	0	50	88	5	2	2	0.70
5137320--5137378	7	8.4	7	82	14	59	83	3	11	1	0.85
5138340--5139238	61	14.7	61	81	3	880	27	26	17	29	1.97
5138346--5139230	181	4.8	181	84	2	997	27	26	17	29	1.98
5138353--5139230	242	3.6	242	82	4	928	27	26	17	28	1.98
5142536--5142566	13	2.4	13	94	0	53	38	12	16	32	1.86
5148722--5148774	20	2.7	20	88	11	74	30	18	13	37	1.89
5148804--5148860	19	2.9	19	86	5	69	35	15	15	33	1.90
5149190--5149466	61	4.6	60	86	3	360	25	24	20	28	1.99
5149190--5149466	120	2.3	122	87	3	382	25	24	20	28	1.99
5149523--5149599	34	2.3	34	84	4	93	20	19	14	45	1.85
5149450--5149761	40	7.8	43	69	13	152	20	24	13	41	1.88
5149702--5149785	41	2.0	43	83	4	109	22	20	13	44	1.86
5149553--5149852	159	1.9	159	90	2	485	19	25	13	42	1.87
5152830--5153028	79	2.5	79	83	5	233	29	23	14	32	1.94
5152989--5153059	28	2.5	28	77	8	90	26	23	15	33	1.95
5152910--5153135	106	2.1	107	85	2	303	30	22	12	34	1.91
5152822--5153215	185	2.1	186	82	6	469	29	23	14	33	1.94
5153016--5153289	79	3.5	79	75	8	263	28	24	14	33	1.94
5153016--5153322	79	3.9	80	76	8	245	28	23	13	34	1.92
5154774--5154977	27	6.6	28	68	21	83	21	30	13	34	1.92
5154774--5155009	60	3.8	60	76	12	174	21	30	13	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5154823--5155042	33	6.8	33	78	8	209	20	30	13	35	1.91
5154822--5154956	68	2.0	67	86	1	189	19	31	11	37	1.88
5154924--5154976	27	2.0	27	100	0	106	22	32	15	30	1.94
5154775--5155047	128	2.2	127	82	5	333	21	31	13	34	1.91
5154856--5155047	93	2.0	95	81	5	221	20	31	13	34	1.91
5155108--5155378	43	5.7	48	71	15	206	24	25	19	30	1.98
5155108--5155378	95	2.9	95	88	2	424	24	25	19	30	1.98
5157768--5157797	15	2.0	15	93	0	51	83	16	0	0	0.65
5157768--5157804	12	3.0	12	84	7	56	83	16	0	0	0.64
5158875--5158981	31	3.6	30	72	17	82	25	27	13	34	1.93
5158949--5159168	33	6.8	33	81	8	245	19	33	14	33	1.91
5158900--5159135	60	3.8	60	79	9	260	20	32	13	32	1.92
5158866--5159138	33	8.8	29	74	17	142	21	31	13	32	1.93
5158928--5159173	128	1.9	127	86	4	352	20	32	14	32	1.93
5158982--5159173	93	2.0	95	83	4	237	19	33	14	32	1.92
5159167--5159223	31	2.0	29	83	13	73	36	24	14	24	1.92
5159234--5160847	52	33.6	50	72	13	941	23	24	19	32	1.97
5159667--5159732	22	3.0	22	67	20	57	30	28	13	27	1.94
5159518--5160860	101	13.9	101	80	9	1270	23	24	18	32	1.97
5159234--5160949	475	3.6	472	84	5	1984	23	24	19	32	1.97
5161745--5161807	19	3.7	18	76	24	73	33	11	17	38	1.85
5161740--5161815	32	2.3	32	93	2	125	34	11	17	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5161837--5161892	20	2.8	20	89	10	96	35	16	12	35	1.86
5167738--5167799	30	2.1	30	90	0	97	32	12	32	22	1.92
5174679--5174742	27	2.4	27	86	0	92	25	21	31	21	1.98
5177093--5177266	52	3.4	52	80	6	178	45	12	14	27	1.81
5183776--5183817	17	2.6	16	85	7	50	61	9	14	14	1.55
5186511--5186718	79	2.6	79	85	3	258	36	12	22	29	1.90
5186511--5186752	79	3.1	79	79	8	219	36	12	23	27	1.91
5189151--5189274	20	5.8	20	76	15	104	41	14	16	28	1.87
5189839--5190171	41	7.9	42	72	13	204	43	12	24	19	1.86
5189839--5190171	83	3.9	86	75	9	292	43	12	24	19	1.86
5189895--5190172	85	3.3	84	75	8	213	46	11	23	18	1.81
5190162--5190905	123	6.0	123	83	5	860	29	19	25	25	1.98
5190162--5190934	61	12.7	62	83	4	851	29	19	26	25	1.98
5190948--5191183	61	3.9	61	88	2	339	28	19	25	25	1.99
5190720--5191122	216	1.9	216	86	4	580	28	18	27	25	1.98
5190669--5191307	277	2.3	276	87	1	915	28	19	26	25	1.98
5192290--5192343	1	54.0	1	77	0	54	1	1	7	88	0.64
5192278--5192342	11	5.8	11	78	12	53	1	6	6	86	0.77
5192292--5192343	17	2.9	18	83	10	63	1	1	7	88	0.66
5192290--5192343	24	2.3	23	87	9	74	1	1	7	88	0.64
5192290--5192343	19	2.9	18	86	8	72	1	1	7	88	0.64
5195486--5195524	13	3.0	13	92	0	69	35	17	15	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5195573--5195602	10	3.0	10	95	0	51	40	3	30	26	1.72
5195626--5195762	53	2.6	53	90	1	211	27	16	18	38	1.91
5200089--5200143	19	2.7	21	86	8	78	34	14	16	34	1.89
5200189--5200219	13	2.4	13	94	0	53	35	16	12	35	1.87
5200173--5200239	33	2.0	33	83	16	86	37	11	17	32	1.87
5205748--5205772	13	1.9	13	100	0	50	32	16	16	36	1.90
5207521--5207596	21	3.7	21	89	7	111	35	13	15	35	1.87
5207632--5207699	19	3.9	19	78	21	85	35	11	14	38	1.83
5207634--5207696	32	2.0	32	96	0	117	34	12	15	36	1.86
5207653--5207677	13	1.9	13	100	0	50	36	16	16	32	1.90
5207740--5207765	13	2.0	13	100	0	52	30	15	15	38	1.88
5210224--5210292	27	2.5	27	88	6	95	24	30	21	23	1.99
5210169--5210562	107	3.7	104	73	11	305	27	27	14	30	1.95
5210279--5210448	52	3.3	53	78	11	181	30	24	12	32	1.92
5210432--5210508	28	2.8	28	87	0	100	23	33	19	23	1.97
5210109--5210515	212	1.9	212	87	3	604	28	27	13	31	1.94
5210383--5210587	107	1.9	107	83	5	261	26	27	16	29	1.96
5210462--5210664	79	2.6	79	83	1	237	24	30	16	29	1.97
5223077--5223137	13	4.6	13	82	8	61	85	6	8	0	0.75
5223077--5223137	14	4.4	14	85	4	72	85	6	8	0	0.75
5224119--5224906	55	14.3	55	92	3	1148	28	30	20	20	1.98
5224632--5224775	29	5.2	29	65	21	110	28	33	19	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5225357--5225411	21	2.7	21	97	2	103	34	10	18	36	1.86
5225447--5225514	19	3.9	19	78	21	85	35	11	14	38	1.83
5225449--5225511	32	2.0	32	96	0	117	34	12	15	36	1.86
5225468--5225492	13	1.9	13	100	0	50	36	16	16	32	1.90
5225555--5225580	13	2.0	13	100	0	52	30	15	15	38	1.88
5228046--5228114	27	2.5	27	88	6	95	24	30	21	23	1.99
5227991--5228384	107	3.7	104	73	11	305	27	27	14	30	1.95
5228101--5228270	52	3.3	53	80	11	190	29	24	12	32	1.93
5228254--5228330	28	2.8	28	87	0	100	23	33	19	23	1.97
5227931--5228337	212	1.9	212	87	3	604	28	27	13	31	1.94

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47