genome.fa.s196.2.7.7.80.10.50.1000.30.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  30  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)
4900421--4900518	31	3.2	31	65	17	78	57	4	4	34	1.37
4900501--4900658	74	2.1	74	91	2	255	51	6	4	37	1.49
4900839--4900863	7	3.6	7	100	0	50	88	0	0	12	0.53
4901219--4901265	25	1.9	25	91	4	78	14	2	6	76	1.08
4903219--4903267	24	2.0	25	84	11	66	28	12	10	48	1.73
4903920--4903959	15	2.7	15	88	7	55	80	0	17	2	0.83
4905596--4905649	24	2.3	24	80	3	65	51	1	0	46	1.11
4905622--4905667	19	2.5	18	82	6	56	47	0	2	50	1.13
4911836--4911877	14	2.9	14	86	13	50	11	4	0	83	0.79
4911851--4911879	9	3.3	9	90	9	51	10	0	0	89	0.48
4911836--4911880	8	5.5	8	78	5	54	13	4	0	82	0.82
4912144--4912196	27	2.0	27	96	0	97	49	13	5	32	1.65
4918462--4918502	2	20.5	2	100	0	82	48	0	0	51	1.00
4922966--4923011	2	23.0	2	100	0	92	50	0	0	50	1.00
4923243--4923273	5	6.2	5	92	0	53	41	0	3	54	1.16
4927158--4927201	19	2.3	19	88	0	61	34	9	0	56	1.31
4927341--4927388	24	2.0	24	84	8	62	50	2	0	47	1.12
4927846--4927973	66	1.9	66	88	3	195	44	6	6	42	1.54
4933419--4933563	73	2.0	73	95	0	263	46	20	15	17	1.84
4938243--4938272	7	4.4	7	95	4	53	0	10	0	90	0.47
4943323--4943385	30	2.0	31	85	11	85	41	15	12	30	1.85
4943754--4943878	44	2.8	44	95	0	214	24	20	14	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4947351--4947387	18	2.1	18	89	0	56	37	21	5	35	1.77
4948044--4948068	2	12.5	2	100	0	50	52	48	0	0	1.00
4954036--4954164	52	2.5	52	94	0	222	29	16	17	36	1.92
4957011--4957068	27	2.1	27	96	0	107	43	8	27	20	1.81
4964117--4964163	21	2.3	21	82	10	62	44	4	19	31	1.70
4967945--4968050	53	2.0	53	100	0	212	26	16	11	45	1.82
4981187--4981482	42	7.0	43	71	8	164	18	27	16	37	1.92
4981138--4981482	84	4.1	84	73	7	236	18	27	17	36	1.93
4981982--4982027	11	3.8	12	78	15	51	76	0	0	23	0.79
4981980--4982027	17	2.7	17	83	6	60	75	0	0	25	0.81
4982425--4982466	12	3.3	12	87	12	66	54	11	23	9	1.66
4982966--4983048	11	7.0	12	69	17	50	65	10	18	6	1.44
4982954--4983058	35	3.0	35	88	10	153	64	10	18	6	1.45
4984293--4984368	38	2.0	38	97	0	143	46	13	2	38	1.57
4987777--4987839	31	2.0	31	100	0	126	38	30	12	19	1.89
4988543--4988894	174	2.0	174	100	0	704	32	18	13	35	1.90
4989843--4990138	155	1.9	153	86	4	425	44	17	14	22	1.85
4991515--4991723	102	2.0	102	100	0	418	37	17	15	29	1.91
4991810--4991975	85	2.0	84	96	1	305	45	13	12	28	1.80
4994169--4994200	2	16.0	2	100	0	64	0	0	50	50	1.00
4994315--4994340	2	13.0	2	100	0	52	50	0	0	50	1.00
4994340--4994371	2	16.0	2	93	0	55	3	0	46	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4999029--4999061	7	4.7	7	89	10	50	78	0	0	21	0.75
4999029--4999068	15	2.7	15	88	3	64	82	0	0	17	0.67
5001032--5001083	23	2.3	23	96	0	95	15	28	40	15	1.88
5002147--5002189	17	2.5	17	76	0	50	37	2	0	60	1.10
5003133--5003190	31	1.9	30	86	10	82	29	15	15	39	1.88
5003132--5003229	36	3.0	32	71	16	85	28	22	12	36	1.90
5003642--5003749	52	2.1	52	82	3	128	33	14	14	37	1.88
5004224--5004248	13	1.9	13	100	0	50	32	16	16	36	1.90
5004236--5004288	20	2.6	21	84	3	72	39	15	15	30	1.87
5004340--5004365	13	2.0	13	100	0	52	30	15	15	38	1.88
5010532--5010569	13	2.9	13	88	0	58	28	15	18	36	1.92
5010701--5010741	22	2.0	20	86	13	57	31	21	4	41	1.74
5012427--5012471	22	2.0	22	83	8	56	37	2	26	33	1.69
5013026--5013051	13	2.0	13	100	0	52	30	15	15	38	1.88
5013039--5013089	20	2.5	21	87	3	68	39	13	17	29	1.88
5013143--5013168	13	2.0	13	100	0	52	30	15	15	38	1.88
5013123--5013190	33	2.1	32	91	2	109	35	16	13	35	1.87
5015949--5016014	19	3.5	20	71	21	61	46	7	6	39	1.57
5017031--5017086	17	3.2	17	89	5	76	48	7	0	44	1.30
5018963--5018994	17	1.9	17	93	6	57	40	0	0	59	0.97
5019105--5019773	156	4.3	156	79	5	584	39	17	15	28	1.90
5021253--5021317	33	2.0	33	90	0	103	33	16	13	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5021837--5021948	34	3.3	34	78	6	118	34	10	23	31	1.89
5022229--5022299	20	3.5	20	77	11	74	39	15	14	30	1.87
5022269--5022405	53	2.6	53	94	1	229	37	17	16	27	1.92
5022429--5022467	10	4.0	10	83	3	53	23	28	7	41	1.82
5026046--5026083	20	1.9	20	94	0	67	42	13	13	31	1.82
5026099--5026123	13	1.9	13	100	0	50	32	20	16	32	1.94
5029104--5029142	14	2.9	14	92	3	62	33	15	15	35	1.89
5029294--5029331	20	2.0	20	94	5	69	36	10	15	36	1.82
5035952--5036259	79	3.9	79	76	4	298	33	13	24	28	1.93
5036195--5036310	51	2.3	51	83	0	142	32	10	24	32	1.89
5036256--5036525	108	2.5	107	81	4	328	33	15	23	27	1.95
5036401--5036474	28	2.6	28	87	10	107	27	21	29	21	1.99
5036461--5036604	51	2.8	51	80	0	153	35	10	21	32	1.87
5038974--5039028	20	2.8	20	91	0	92	47	12	12	27	1.78
5039736--5039876	41	3.3	42	79	11	151	46	13	23	17	1.83
5039854--5039925	37	1.9	37	91	0	117	43	16	31	8	1.78
5039904--5040238	61	5.6	61	84	8	431	28	18	26	25	1.98
5039904--5040238	116	2.8	122	85	6	447	28	18	26	25	1.98
5039966--5040496	277	1.9	278	83	7	700	28	18	27	25	1.98
5040105--5040395	161	1.8	156	86	7	417	28	18	26	25	1.98
5040260--5040586	61	5.3	62	87	5	459	29	18	26	25	1.98
5048211--5048262	20	2.7	20	87	3	79	32	19	13	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5048291--5048357	33	2.0	33	88	5	100	37	13	16	32	1.88
5049105--5049160	20	2.7	22	81	13	73	33	12	16	37	1.86
5049577--5049678	34	3.0	34	81	4	107	34	7	25	32	1.85
5050392--5050430	14	2.8	14	80	0	51	17	5	5	71	1.23
5053688--5053721	2	17.0	2	100	0	68	50	0	0	50	1.00
5053980--5054029	23	2.2	23	82	7	57	16	18	0	66	1.26
5055210--5055235	13	2.0	13	100	0	52	30	15	15	38	1.88
5055190--5055257	33	2.1	32	88	2	100	35	16	14	33	1.89
5061373--5061411	13	3.0	13	84	0	60	33	20	12	33	1.91
5061543--5061583	22	2.0	20	86	13	57	31	21	4	41	1.74
5063861--5063916	20	2.8	20	86	2	76	42	14	16	26	1.86
5063968--5063993	13	2.0	13	100	0	52	30	15	15	38	1.88
5063948--5064015	33	2.1	32	88	2	100	35	16	14	33	1.89
5065743--5066485	165	4.5	166	81	6	811	30	9	7	52	1.62
5066214--5066548	155	2.2	156	85	3	462	28	11	8	51	1.66
5066214--5066597	155	2.5	153	82	6	461	28	11	8	51	1.67
5066967--5067026	10	5.6	10	73	19	50	81	0	15	3	0.81
5066966--5067016	11	4.5	11	83	11	59	84	0	13	1	0.71
5066962--5066997	15	2.5	14	90	4	54	88	0	11	0	0.50
5066962--5067026	22	3.0	21	79	14	71	83	0	13	3	0.77
5066962--5067016	24	2.3	23	87	6	83	85	0	12	1	0.68
5067783--5068122	143	2.4	139	85	5	448	34	10	11	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5070074--5070098	13	1.9	13	100	0	50	36	16	16	32	1.90
5070054--5070118	33	2.0	33	84	6	87	36	12	18	32	1.88
5071043--5071096	20	2.6	21	76	2	56	44	11	12	31	1.78
5073850--5073945	10	9.9	9	72	14	59	8	12	0	79	0.94
5073850--5073925	8	9.5	8	72	13	50	6	11	0	81	0.86
5073851--5073944	15	6.3	15	71	15	52	8	11	0	79	0.92
5074916--5075068	41	3.8	41	79	7	177	36	14	24	24	1.93
5076694--5076767	20	3.8	20	92	1	114	33	17	16	32	1.92
5079287--5079311	13	1.9	13	100	0	50	40	8	16	36	1.77
5083115--5083182	33	2.1	33	86	8	95	36	17	14	30	1.90

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