genome.fa.s72.2.7.7.80.10.50.1000.38.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  38  of  39  ( 4596 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)
5648872--5648946	15	5.0	14	77	12	62	2	28	0	69	1.02
5649651--5649683	15	2.2	15	89	10	50	51	0	0	48	1.00
5649624--5649711	36	2.5	35	82	12	99	54	0	0	45	0.99
5649655--5649701	22	2.2	20	81	7	58	53	0	0	46	1.00
5649655--5649714	26	2.3	27	82	5	79	53	0	0	46	1.00
5649737--5649772	3	12.0	3	100	0	72	33	0	0	66	0.92
5649983--5650042	26	2.3	25	83	13	77	43	1	0	55	1.10
5649994--5650044	26	1.9	27	92	4	86	39	0	0	60	0.97
5649994--5650049	21	2.4	23	85	14	71	41	0	0	58	0.98
5650003--5650060	21	2.8	20	73	19	57	46	0	0	53	1.00
5650403--5650471	36	1.9	36	84	0	93	52	1	2	43	1.25
5650635--5650689	23	2.3	23	81	6	65	54	0	0	45	0.99
5650888--5650971	39	2.1	40	82	6	100	52	3	1	42	1.26
5650868--5650975	33	3.1	33	69	19	94	47	5	0	46	1.32
5655125--5655158	10	3.3	10	87	4	50	29	0	0	70	0.87
5655132--5655227	15	6.4	15	73	12	72	32	0	0	67	0.91
5655126--5655214	25	3.7	26	72	21	84	31	0	0	68	0.90
5655124--5655227	25	4.3	23	68	20	70	33	0	0	66	0.92
5656115--5656168	16	3.4	16	81	0	63	44	1	1	51	1.22
5657976--5658025	26	1.9	26	100	0	100	38	4	0	58	1.17
5657982--5658037	26	2.2	26	81	9	62	44	3	3	48	1.37
5670639--5670668	6	5.0	6	91	0	51	33	30	16	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5675474--5675541	33	2.1	33	94	0	118	19	30	29	20	1.97
5678505--5678581	15	5.1	14	77	16	66	44	0	0	55	0.99
5678493--5678589	16	6.2	16	75	13	69	42	0	2	55	1.11
5678505--5678589	31	2.8	28	75	18	73	43	0	1	55	1.07
5679091--5679138	2	23.0	2	87	8	69	45	0	4	50	1.21
5679597--5679658	23	2.7	23	85	5	72	59	0	3	37	1.13
5679619--5679688	36	1.9	36	94	5	124	62	0	0	37	0.95
5679619--5679701	38	2.2	37	87	10	116	62	0	0	37	0.95
5679677--5679725	13	3.8	13	75	19	50	67	0	2	30	1.02
5679678--5679726	24	2.0	25	84	11	66	65	0	4	30	1.11
5679679--5679741	24	2.5	25	75	19	60	63	0	7	28	1.22
5680443--5680513	13	5.2	13	71	22	56	47	0	0	52	1.00
5680443--5680513	14	5.0	14	74	19	58	47	0	0	52	1.00
5680637--5680675	12	3.2	12	88	3	51	35	0	0	64	0.94
5680909--5680963	25	2.2	26	81	12	62	61	1	0	36	1.06
5681805--5681843	2	19.5	2	100	0	78	0	48	0	51	1.00
5688966--5689094	66	2.0	65	95	1	231	26	17	19	36	1.94
5689150--5689191	21	2.0	21	95	0	75	21	9	35	33	1.86
5696650--5696687	2	19.5	2	94	5	69	50	0	0	50	1.00
5696967--5696999	2	16.5	2	100	0	66	51	0	0	48	1.00
5697159--5697205	24	2.0	24	95	0	85	29	12	17	40	1.86
5698461--5698502	2	21.0	2	100	0	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5698621--5698655	2	17.5	2	100	0	70	48	0	0	51	1.00
5699369--5699411	8	5.4	8	88	0	59	48	9	0	41	1.35
5699365--5699411	2	24.0	2	78	4	51	48	8	0	42	1.33
5699491--5699531	2	20.5	2	89	0	64	0	51	2	46	1.14
5699531--5699566	2	18.0	2	100	0	72	50	0	0	50	1.00
5701803--5701838	2	18.0	2	100	0	72	50	50	0	0	1.00
5706648--5706679	14	2.3	14	94	0	55	0	9	0	90	0.45
5714644--5714686	19	2.3	19	80	8	52	51	0	2	46	1.13
5715774--5716022	132	1.9	132	83	0	327	34	7	8	49	1.61
5720080--5720151	36	2.0	36	81	7	85	58	2	0	38	1.13
5724795--5724845	26	2.0	26	92	0	84	13	19	19	47	1.83
5736715--5736748	7	4.7	7	88	3	50	82	0	2	14	0.79
5736716--5736748	14	2.4	14	94	0	57	81	0	3	15	0.80
5737850--5737879	8	3.8	8	95	0	51	80	0	0	20	0.72
5737848--5737882	15	2.3	15	90	0	52	77	0	0	22	0.78
5738109--5738155	24	2.0	24	83	8	60	59	0	19	21	1.38
5740804--5740837	7	4.7	7	85	7	50	17	0	0	82	0.67
5740804--5740837	15	2.3	15	90	5	52	17	0	0	82	0.67
5743045--5743112	23	2.9	23	73	22	70	57	0	0	42	0.98
5743059--5743141	21	4.1	21	71	24	63	60	0	0	39	0.97
5743047--5743134	45	2.0	42	80	17	97	60	0	0	39	0.97
5744125--5744159	2	17.5	2	100	0	70	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5745543--5745572	2	15.0	2	92	0	51	53	0	0	46	1.00
5745742--5745771	1	30.0	1	100	0	60	0	100	0	0	0.00
5751738--5751796	23	2.5	25	81	10	70	40	0	0	59	0.97
5751756--5751801	10	4.6	10	81	10	58	34	0	0	65	0.93
5753827--5753903	30	2.6	30	89	0	118	29	16	14	38	1.88
5755180--5755233	23	2.3	23	81	15	67	35	3	1	59	1.26
5755228--5755267	21	2.0	21	85	5	55	47	0	0	52	1.00
5757291--5757324	6	5.7	6	85	0	50	0	17	32	50	1.47
5757664--5757700	3	12.3	3	94	0	65	0	35	0	64	0.94
5757907--5757936	2	15.0	2	100	0	60	0	50	0	50	1.00
5768163--5768212	5	10.0	5	93	0	64	8	40	0	52	1.31
5790381--5790432	20	2.5	21	93	6	81	51	0	0	48	1.00
5790390--5790432	20	2.2	20	100	0	86	48	0	0	51	1.00
5797765--5797803	2	19.5	2	100	0	78	48	0	0	51	1.00
5799904--5799949	24	2.0	23	91	4	74	76	2	19	2	1.00
5801077--5801115	2	19.5	2	94	0	69	48	2	0	48	1.15
5808922--5808996	16	4.8	16	83	8	100	54	1	0	44	1.08
5808924--5808992	31	2.2	31	84	5	95	56	1	0	42	1.08
5809125--5809194	30	2.3	30	80	4	79	35	0	2	61	1.11
5809809--5809872	19	3.4	19	66	23	53	53	3	6	37	1.42
5809909--5809965	22	2.8	21	79	10	64	45	0	1	52	1.11
5815517--5815550	2	17.5	2	93	6	61	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5815880--5815911	3	10.7	3	100	0	64	68	0	31	0	0.90
5816568--5816603	6	6.0	6	96	0	54	38	0	61	0	0.96
5816762--5816816	3	18.7	3	92	3	94	67	0	1	30	1.01
5817256--5817293	6	6.7	6	96	3	62	0	0	10	89	0.49
5817589--5817614	2	13.0	2	100	0	52	50	0	0	50	1.00
5817479--5817726	112	2.2	112	98	0	478	36	12	6	43	1.70
5817701--5817735	2	17.5	2	100	0	70	51	0	0	48	1.00
5818681--5818730	25	2.0	26	92	4	84	34	0	2	64	1.05
5823221--5823269	21	2.4	21	75	3	55	30	0	4	65	1.11
5830826--5830869	12	3.7	12	96	0	70	63	6	0	29	1.20
5834557--5834581	2	12.5	2	100	0	50	48	0	0	52	1.00
5836059--5836091	11	2.8	12	90	4	50	0	9	3	87	0.63
5836059--5836090	16	1.9	17	93	6	57	0	9	3	87	0.64
5842311--5842344	3	11.0	3	87	6	50	32	5	0	61	1.20
5843263--5843290	2	14.0	2	100	0	56	50	0	0	50	1.00
5843826--5843851	5	5.2	5	100	0	52	19	42	19	19	1.90
5844598--5844628	2	15.5	2	100	0	62	48	0	0	51	1.00
5846067--5846102	2	18.5	2	94	5	65	0	47	0	52	1.00
5846102--5846138	2	18.5	2	100	0	74	48	0	0	51	1.00
5846633--5846658	2	13.0	2	100	0	52	50	0	0	50	1.00
5849308--5849353	2	23.0	2	100	0	92	50	0	50	0	1.00
5851022--5851065	22	2.0	22	100	0	88	22	13	27	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5852424--5852479	3	19.0	3	85	3	78	32	1	3	62	1.23
5854734--5854774	21	2.1	20	86	13	59	24	2	24	48	1.63
5854827--5854870	2	22.0	2	100	0	88	50	0	0	50	1.00
5855041--5855097	8	6.9	8	82	4	69	57	24	0	17	1.39
5855055--5855099	9	5.2	9	89	2	58	57	24	0	17	1.40
5865295--5865607	155	2.0	155	98	0	608	25	15	22	37	1.93
5867522--5867560	15	2.6	14	84	8	51	84	0	2	12	0.72
5867716--5867755	2	20.0	2	100	0	80	50	0	0	50	1.00
5869638--5869718	42	1.9	42	87	5	119	32	16	6	45	1.71
5869992--5870029	16	2.4	16	90	0	58	39	28	15	15	1.89

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