genome.fa.s253.2.7.7.80.10.50.1000.12.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: Scaffold253
Parameters: 2 7 7 80 10 50 1000
Length:  2064896

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  12  of  13  ( 1496 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)
1673379--1673406	2	14.0	2	100	0	56	50	0	0	50	1.00
1683836--1683869	16	2.1	17	88	5	52	47	0	2	50	1.16
1690382--1690409	2	14.0	2	100	0	56	50	0	50	0	1.00
1699453--1699506	23	2.4	22	81	6	63	53	1	0	44	1.11
1700915--1701012	47	2.1	46	80	14	103	46	2	0	51	1.12
1706287--1706382	31	3.1	31	95	0	174	23	8	15	52	1.70
1712209--1712238	13	2.3	13	94	0	51	43	10	0	46	1.37
1714915--1714984	37	1.9	36	82	8	88	50	0	2	47	1.16
1715187--1715211	2	12.5	2	100	0	50	52	0	0	48	1.00
1716927--1716955	12	2.3	13	94	5	51	44	0	0	55	0.99
1720694--1720760	5	13.2	5	74	22	52	40	0	2	56	1.14
1720692--1720766	9	8.1	9	76	16	64	41	0	2	56	1.13
1720692--1720761	13	5.1	13	77	13	77	42	0	2	54	1.15
1720682--1720753	21	3.4	21	69	17	58	45	0	2	51	1.15
1720672--1720766	43	2.3	40	81	16	99	43	1	2	53	1.19
1720881--1720928	18	2.6	18	83	3	51	62	6	0	31	1.20
1720842--1720916	23	3.3	23	72	9	64	53	9	0	37	1.33
1721807--1721880	15	4.7	15	68	15	51	44	0	0	55	0.99
1721828--1721881	16	3.2	16	76	19	56	40	0	0	59	0.98
1722731--1722788	23	2.6	23	83	8	66	68	6	3	20	1.27
1723004--1723102	11	8.9	11	68	18	53	62	2	2	33	1.18
1724383--1724485	29	3.4	31	73	12	81	40	1	1	55	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1724527--1724605	32	2.8	27	74	18	70	35	0	2	62	1.09
1724550--1724718	32	5.2	32	70	13	121	39	2	1	56	1.23
1724342--1724693	187	1.9	185	86	5	505	33	3	2	60	1.27
1728362--1728441	30	2.7	30	86	0	115	25	41	11	22	1.87
1736448--1736518	22	3.1	24	75	19	80	61	0	0	38	0.96
1742726--1742761	2	18.0	2	100	0	72	50	0	0	50	1.00
1757575--1757634	19	3.2	17	74	21	50	46	1	1	50	1.21
1757934--1758015	32	2.9	27	71	23	78	57	0	0	42	0.98
1757954--1758020	16	4.2	16	73	21	52	55	0	0	44	0.99
1758166--1758267	41	2.4	40	87	9	134	53	2	3	39	1.34
1759949--1759976	3	9.3	3	100	0	56	67	0	0	32	0.91
1760071--1760162	28	3.1	27	75	19	78	44	0	1	54	1.07
1760118--1760180	22	3.0	22	81	11	69	52	0	0	47	1.00
1760875--1760907	13	2.4	14	90	5	50	72	0	0	27	0.85
1760875--1760907	7	4.9	7	85	7	50	72	0	0	27	0.85
1760951--1761024	21	3.5	21	77	16	73	63	1	0	35	1.03
1761039--1761071	16	2.1	16	88	11	50	57	0	0	42	0.98
1761351--1761380	2	15.0	2	100	0	60	50	0	0	50	1.00
1761597--1761629	15	2.3	15	90	10	52	63	0	0	36	0.95
1761710--1761762	20	2.5	21	78	6	54	49	1	0	49	1.12
1767759--1767792	17	2.0	17	88	11	52	47	0	0	52	1.00
1778722--1778762	3	13.7	3	100	0	82	65	0	34	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781086--1781136	25	2.0	25	100	0	102	41	11	19	27	1.86
1791267--1791305	3	12.7	3	83	5	51	61	2	0	35	1.10
1796564--1796642	41	2.1	36	86	11	104	43	1	0	55	1.07
1808307--1808331	4	6.2	4	100	0	50	24	0	0	76	0.80
1813023--1813067	10	4.1	11	85	8	56	0	20	4	75	0.97
1813030--1813065	5	6.8	5	90	6	54	0	16	2	80	0.83
1813764--1813839	40	1.9	40	100	0	152	27	22	11	38	1.89
1822621--1822727	27	3.9	27	76	13	83	38	0	3	57	1.16
1822954--1823000	24	2.0	24	83	8	60	42	0	0	57	0.98
1822944--1823015	30	2.4	30	72	4	74	50	0	0	50	1.00
1823373--1823402	2	15.0	2	100	0	60	0	50	0	50	1.00
1823578--1823613	2	18.0	2	100	0	72	50	0	0	50	1.00
1824724--1825043	105	3.0	105	95	1	570	37	12	24	26	1.90
1825248--1825290	21	2.2	20	87	8	61	44	0	2	53	1.13
1825258--1825333	39	1.9	40	84	7	102	36	1	1	60	1.13
1830444--1830472	2	14.5	2	100	0	58	0	48	0	51	1.00
1844496--1844539	16	2.8	16	85	0	61	43	4	9	43	1.56
1844498--1844541	22	2.0	22	90	0	70	47	2	6	43	1.42
1844576--1844613	6	6.3	6	96	0	58	15	10	52	21	1.72
1844739--1844766	2	14.0	2	100	0	56	50	0	0	50	1.00
1848497--1848546	16	3.1	16	82	0	64	46	4	6	44	1.47
1849580--1849624	20	2.2	20	84	8	54	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850215--1850242	7	4.0	7	100	0	56	85	0	0	14	0.59
1850509--1850548	19	2.3	19	87	12	59	30	0	5	65	1.14
1851661--1851700	2	20.0	2	100	0	80	50	0	0	50	1.00
1860793--1860846	26	2.1	26	86	13	76	57	0	0	42	0.98
1863694--1863720	2	13.5	2	100	0	54	51	48	0	0	1.00
1864808--1864841	2	17.0	2	87	0	50	50	47	2	0	1.16
1867060--1867088	2	15.0	2	92	7	51	48	0	0	51	1.00
1869789--1869832	14	3.3	14	75	12	56	68	0	0	31	0.90
1869789--1869840	26	2.0	26	88	0	77	67	3	0	28	1.08
1879610--1879638	8	3.6	8	100	0	58	10	0	0	89	0.48
1891354--1891393	4	10.0	4	88	0	62	0	30	0	70	0.88
1891389--1891427	3	13.0	3	100	0	78	0	33	0	66	0.92
1892468--1892492	10	2.5	10	100	0	50	0	16	8	76	1.02
1903272--1903309	14	2.6	15	83	4	51	44	0	0	55	0.99
1903342--1903390	24	2.1	24	85	7	66	36	2	4	57	1.30
1903712--1903771	24	2.5	23	89	5	84	41	0	0	58	0.98
1904886--1904939	22	2.5	23	76	11	60	44	1	0	53	1.11
1912738--1912767	2	15.0	2	92	0	51	46	0	3	50	1.18
1912823--1912850	3	9.3	3	100	0	56	64	0	0	35	0.94
1913182--1913218	17	2.1	18	90	5	58	29	8	0	62	1.24
1917860--1917907	6	8.0	6	100	0	96	16	16	33	33	1.92
1930488--1930517	2	15.5	2	93	6	53	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)
1931518--1931544	2	13.5	2	100	0	54	0	48	0	51	1.00
1935304--1935362	27	2.4	25	71	23	61	45	13	11	28	1.79
1935314--1935368	27	2.0	27	92	0	92	45	14	10	29	1.79
1936505--1936541	2	19.5	2	89	10	60	51	0	0	48	1.00
1946487--1946531	3	15.0	3	95	0	81	33	2	0	64	1.06
1946861--1946899	13	2.8	14	88	7	53	7	2	2	87	0.73
1948072--1948100	5	6.0	5	92	8	51	37	20	0	41	1.53
1952810--1952845	14	2.4	14	90	9	54	50	0	0	50	1.00
1952810--1952859	16	3.2	16	86	10	61	46	0	0	54	1.00
1952805--1952854	15	3.5	15	76	17	52	48	0	0	52	1.00
1953056--1953131	31	2.4	31	81	12	84	34	1	1	63	1.11
1953062--1953112	17	3.2	17	78	15	56	31	1	1	64	1.15
1953080--1953132	20	2.4	23	76	20	60	35	0	0	64	0.94
1953073--1953131	31	1.9	31	86	10	86	35	0	0	64	0.94
1953742--1953806	34	1.9	34	83	0	85	43	10	3	43	1.55
1954234--1954259	2	13.0	2	100	0	52	50	0	0	50	1.00
1954760--1954891	46	2.9	46	97	0	246	19	15	19	44	1.86
1957368--1957409	2	21.0	2	85	0	57	47	0	4	47	1.23
1959182--1959207	3	8.7	3	100	0	52	30	0	0	69	0.89
1962054--1962087	6	5.5	6	86	6	50	82	2	14	0	0.79
1962326--1962364	2	20.5	2	89	10	64	48	0	51	0	1.00
1962882--1962913	3	10.7	3	100	0	64	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1964329--1964361	3	11.0	3	100	0	66	66	0	0	33	0.92
1965668--1965701	10	3.4	10	87	0	50	32	0	67	0	0.91
1965918--1965943	4	6.5	4	100	0	52	50	0	50	0	1.00
1967729--1967771	2	22.0	2	95	4	79	51	0	48	0	1.00
1968648--1968678	2	15.5	2	100	0	62	0	48	0	51	1.00
1969358--1969396	14	2.9	14	88	7	55	28	5	7	58	1.47
1977814--1977860	20	2.3	21	92	3	78	51	0	6	42	1.27
1978866--1978891	3	8.7	3	100	0	52	69	0	0	30	0.89
1980355--1980379	2	12.5	2	100	0	50	0	48	0	52	1.00
1981059--1981093	6	6.0	6	90	6	54	0	37	0	62	0.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13