genome.fa.s43.2.7.7.80.10.50.1000.16.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  16  of  19  ( 2200 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)
1852026--1852084	24	2.3	27	82	14	79	45	0	0	54	0.99
1852041--1852093	14	3.6	14	80	12	52	39	0	0	60	0.97
1852034--1852110	8	9.6	8	71	14	52	37	0	0	62	0.96
1852079--1852123	24	1.9	23	86	13	65	28	0	0	71	0.87
1852075--1852140	18	3.6	18	73	19	55	30	0	0	69	0.88
1852883--1852927	19	2.3	19	84	7	54	37	2	0	60	1.09
1852899--1852970	8	10.4	7	73	18	53	31	0	0	68	0.90
1852899--1852974	34	2.2	33	84	13	93	31	0	0	68	0.90
1852918--1852974	27	2.2	27	87	6	82	31	0	0	68	0.90
1852909--1852969	15	3.8	16	76	19	65	32	0	0	67	0.91
1854399--1854458	16	3.6	18	69	17	56	51	0	1	46	1.10
1856421--1856595	66	2.6	65	82	3	199	25	25	28	20	1.99
1857303--1857367	28	2.3	29	76	10	71	44	0	1	53	1.09
1858239--1858279	15	2.9	15	89	7	59	29	2	0	68	1.03
1858275--1858317	20	2.1	20	86	4	59	55	0	0	44	0.99
1858275--1858336	21	3.0	20	80	15	63	58	0	0	41	0.98
1858811--1858880	5	14.4	5	72	21	60	61	0	0	38	0.96
1858819--1858880	11	6.3	11	69	27	50	61	0	0	38	0.96
1858811--1858882	26	2.7	27	79	8	69	62	0	0	37	0.95
1858806--1858896	37	2.5	36	77	18	100	60	0	0	39	0.97
1858828--1858874	16	2.8	17	75	15	53	63	0	0	36	0.94
1865586--1865649	3	20.7	3	76	17	60	60	0	1	37	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1865586--1865649	22	3.0	22	76	17	71	60	0	1	37	1.06
1865763--1865795	15	2.1	16	88	5	50	57	0	0	42	0.98
1865797--1865845	20	2.3	22	83	13	59	44	6	0	48	1.27
1868730--1868762	13	2.5	13	90	0	57	51	0	0	48	1.00
1869058--1869101	23	1.9	23	86	9	63	47	0	2	50	1.13
1869761--1869822	26	2.5	23	82	15	70	46	0	0	53	1.00
1877073--1877187	37	3.4	36	68	22	104	52	0	0	46	1.06
1877062--1877193	64	2.0	65	91	1	212	51	2	0	46	1.13
1877731--1877757	13	2.1	13	100	0	54	40	0	0	59	0.98
1878272--1878309	19	2.0	19	85	10	51	55	2	2	39	1.28
1881596--1881628	4	8.8	4	87	12	52	75	0	0	24	0.80
1881593--1881627	7	5.0	7	90	10	54	74	0	0	25	0.82
1881888--1881928	20	2.0	20	86	9	57	43	2	0	53	1.13
1881947--1882060	43	2.6	44	76	13	119	44	0	0	53	1.12
1882006--1882101	30	3.0	30	79	8	84	43	3	1	52	1.24
1882897--1882947	24	2.3	21	83	12	59	47	0	0	52	1.00
1882860--1882976	60	1.9	63	82	7	150	47	0	0	51	1.12
1882908--1882970	32	1.9	32	83	3	81	50	1	0	47	1.10
1882966--1883010	23	2.0	23	82	8	56	31	0	0	68	0.89
1882989--1883028	15	2.7	15	88	3	55	42	0	0	57	0.98
1883345--1883384	14	3.0	14	80	20	50	67	0	2	30	1.04
1884271--1884303	14	2.4	14	90	5	50	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1884648--1884710	25	2.4	25	79	12	65	58	0	0	41	0.98
1884650--1884709	32	2.0	29	83	9	75	56	0	0	43	0.99
1885910--1886052	16	8.8	16	68	27	70	40	0	0	58	1.08
1885910--1886015	29	3.9	27	70	18	78	43	0	0	54	1.13
1885908--1886050	58	2.5	56	77	13	132	41	0	0	56	1.09
1886004--1886043	6	7.2	6	83	11	50	32	0	0	67	0.91
1885998--1886032	17	2.1	17	94	0	61	31	0	0	68	0.90
1885972--1886042	11	6.5	11	77	11	58	39	0	0	60	0.97
1886665--1886689	2	12.5	2	100	0	50	52	0	0	48	1.00
1887979--1888013	17	2.1	17	94	0	61	37	0	2	60	1.12
1887982--1888035	23	2.3	24	80	6	65	38	0	3	57	1.17
1888085--1888123	14	2.9	14	88	3	53	56	0	0	43	0.99
1888091--1888149	6	9.7	6	75	14	50	49	1	0	49	1.11
1889359--1889402	23	2.0	22	87	12	65	43	0	0	56	0.99
1889383--1889415	13	2.4	14	85	5	50	45	0	0	54	0.99
1889447--1889502	26	2.2	26	81	12	62	44	0	0	55	0.99
1892036--1892103	21	3.4	21	71	13	63	39	1	0	58	1.07
1896803--1896873	26	2.8	25	82	16	83	53	0	0	46	1.00
1896818--1896857	20	2.0	20	85	9	55	50	0	0	50	1.00
1898968--1899032	16	3.9	18	74	20	61	46	0	0	53	1.00
1899072--1899110	15	2.5	16	87	8	62	53	0	0	46	1.00
1915197--1915232	16	2.2	17	95	5	65	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)
1915764--1916173	223	1.9	219	80	12	476	39	5	8	47	1.56
1925900--1925977	14	5.8	13	69	19	54	2	46	24	26	1.66
1933105--1933155	19	2.6	19	78	3	57	27	0	1	70	0.98
1933105--1933155	20	2.6	19	81	3	57	27	0	1	70	0.98
1936201--1936276	13	5.8	14	72	20	58	47	0	2	50	1.15
1936220--1936277	22	2.6	22	89	5	82	48	0	0	51	1.00
1937812--1937917	1	106.0	1	86	0	140	92	0	0	6	0.43
1937812--1937918	54	2.0	54	92	3	180	91	0	0	7	0.46
1954097--1954146	15	3.3	15	81	16	50	72	0	0	28	0.86
1954093--1954143	17	2.9	17	78	16	50	72	0	0	27	0.85
1954096--1954134	20	1.9	20	84	5	51	74	0	0	25	0.82
1959508--1959549	19	2.2	19	83	8	50	57	0	0	42	0.99
1963649--1963691	2	21.5	2	95	0	77	53	0	46	0	1.00
1964597--1964695	14	7.1	14	75	7	87	29	22	19	29	1.98
1964597--1964696	27	3.6	27	73	8	85	30	22	19	29	1.97
1964600--1964695	41	2.3	41	82	5	113	30	21	18	29	1.97
1964633--1964729	27	3.6	27	78	1	104	27	25	21	24	1.99
1964633--1964731	14	7.2	14	74	4	85	28	25	22	24	1.99
1965289--1965327	17	2.6	14	78	21	51	28	15	17	38	1.91
1965561--1965595	18	2.1	17	89	10	54	60	5	0	34	1.21
1973381--1973408	2	14.0	2	100	0	56	50	0	0	50	1.00
1974119--1974165	19	2.6	19	76	6	53	55	0	2	42	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1974295--1974345	27	1.9	28	84	11	72	47	1	0	50	1.12
1974351--1974409	19	3.2	19	71	9	50	50	0	1	47	1.11
1974061--1974691	212	3.0	210	93	2	1072	49	6	3	40	1.47
1975087--1975144	24	2.3	27	76	23	65	65	1	0	32	1.03
1975087--1975144	27	2.1	27	84	6	73	65	1	0	32	1.03
1975112--1975161	22	2.2	24	82	13	61	66	0	2	32	1.03
1975139--1975246	29	3.9	29	66	25	72	53	0	0	44	1.13
1975732--1975802	24	3.0	22	76	21	65	50	1	0	47	1.09
1976021--1976116	17	5.8	16	71	17	61	43	3	2	51	1.29
1976063--1976129	13	4.6	16	69	23	51	47	0	1	50	1.10
1976591--1976636	23	2.0	24	82	4	58	43	0	6	50	1.28
1977624--1977690	34	2.0	32	86	11	91	47	2	1	47	1.26
1978149--1978197	23	2.1	23	82	14	57	53	0	2	44	1.12
1979375--1979452	28	2.8	27	81	12	88	38	1	0	60	1.05
1979407--1979449	18	2.6	16	82	10	52	44	2	0	53	1.13
1979380--1979475	20	4.8	19	72	15	68	37	1	1	60	1.11
1982531--1982583	20	2.9	19	74	23	60	56	0	0	43	0.99
1983070--1983127	30	2.0	29	86	10	82	39	0	0	60	0.97
1983078--1983125	22	2.2	21	85	3	60	37	0	0	62	0.95
1983065--1983165	16	6.5	15	68	20	57	40	0	2	55	1.22
1983192--1983225	2	16.5	2	87	6	50	44	2	0	52	1.16
1985523--1985557	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1985946--1985989	18	2.4	18	79	20	56	65	0	2	31	1.05
1985958--1986005	20	2.3	21	79	13	55	66	0	0	33	0.92
1986082--1986116	18	1.9	18	94	0	61	45	2	5	45	1.41
1986190--1986239	14	3.5	14	78	10	57	60	0	0	40	0.97
1986183--1986239	29	1.9	30	86	10	82	57	0	0	42	0.98
1986532--1986561	15	2.0	15	93	0	51	43	0	0	56	0.99
1988104--1988146	12	3.7	12	81	6	52	48	2	0	48	1.14
1988120--1988176	28	2.1	27	87	9	80	61	0	1	36	1.07
1988109--1988168	13	4.6	13	73	20	54	53	0	1	45	1.10
1988395--1988433	19	2.0	20	85	10	53	33	0	0	66	0.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19