genome.fa.s21.2.7.7.80.10.50.1000.11.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: Scaffold21
Parameters: 2 7 7 80 10 50 1000
Length:  2821038

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

This is table  11  of  15  ( 1753 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)
1614271--1614304	15	2.1	17	89	10	54	44	0	0	55	0.99
1614963--1614997	11	3.3	11	84	8	54	42	0	0	57	0.99
1614982--1615048	30	2.2	30	82	17	86	52	0	1	46	1.09
1614982--1615048	31	2.2	31	82	17	88	52	0	1	46	1.09
1624769--1624812	14	3.2	14	80	3	54	40	0	0	59	0.98
1624763--1624805	13	3.2	14	77	9	54	39	0	0	60	0.97
1624781--1624840	24	2.4	26	78	10	63	43	1	0	55	1.10
1625758--1625819	26	2.5	26	81	5	65	43	0	0	56	0.99
1627151--1627191	21	2.0	20	85	9	55	14	17	2	65	1.37
1628173--1628198	13	2.0	13	100	0	52	38	23	7	30	1.83
1629551--1629576	2	13.0	2	100	0	52	50	0	0	50	1.00
1633236--1633274	16	2.4	17	83	12	55	17	7	2	71	1.21
1633744--1633793	24	2.1	24	85	7	66	52	4	0	44	1.20
1634874--1634906	3	11.0	3	100	0	66	0	33	0	66	0.92
1635237--1635278	20	2.0	21	90	4	68	45	0	0	54	0.99
1635237--1635282	22	2.2	20	88	7	65	47	0	0	52	1.00
1635992--1636036	20	2.2	21	84	11	58	42	0	2	55	1.12
1638531--1638571	20	2.0	21	90	4	66	53	0	0	46	1.00
1638539--1638606	22	3.0	23	81	12	79	58	0	1	39	1.07
1640648--1640693	14	3.1	15	78	9	58	54	2	2	41	1.25
1641632--1641664	11	3.0	11	95	0	57	0	21	0	78	0.75
1642502--1642561	15	3.7	15	78	10	57	60	1	0	38	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1646576--1646621	16	2.9	16	81	18	60	39	0	0	60	0.97
1656697--1656742	12	3.8	12	86	11	58	32	0	0	67	0.91
1657057--1657183	63	2.0	63	96	0	236	43	11	4	40	1.61
1660211--1660255	2	23.0	2	81	4	56	46	2	4	46	1.35
1661285--1661311	3	9.0	3	100	0	54	33	0	0	66	0.92
1662394--1662419	5	5.2	5	100	0	52	57	0	0	42	0.98
1663232--1663290	31	1.9	30	83	10	75	57	0	0	42	0.98
1664322--1664350	4	7.5	4	92	7	51	75	0	0	24	0.80
1667868--1667918	25	2.0	26	88	11	79	66	1	0	31	1.03
1675381--1675530	69	2.2	69	85	3	203	42	12	10	34	1.78
1676461--1676498	17	2.1	19	90	9	62	44	0	0	55	0.99
1676495--1676548	12	4.2	12	78	17	63	72	0	1	25	0.95
1676495--1676546	28	1.9	26	88	7	77	71	0	1	26	0.97
1677194--1677302	53	2.0	54	98	1	211	44	20	7	27	1.77
1677786--1677828	21	2.0	21	86	9	59	53	2	0	44	1.13
1678428--1678515	16	5.7	15	68	25	51	39	0	1	59	1.05
1678527--1678559	16	2.1	16	94	0	57	21	0	0	78	0.75
1684316--1684348	2	16.5	2	100	0	66	0	0	48	51	1.00
1684731--1684774	23	2.0	23	86	4	63	59	2	6	31	1.36
1684836--1684893	20	3.0	21	80	14	63	48	0	0	51	1.00
1685176--1685233	17	3.3	18	75	15	59	44	1	0	53	1.10
1685621--1685674	5	10.6	5	86	9	56	0	53	1	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1695651--1695697	15	3.1	15	77	17	53	34	0	0	65	0.93
1695666--1695709	13	3.2	13	82	17	54	34	0	0	65	0.93
1696563--1696596	2	17.0	2	100	0	68	50	0	0	50	1.00
1696992--1697036	23	2.0	23	87	8	67	33	0	0	66	0.92
1697200--1697239	21	1.9	21	100	0	80	50	0	20	30	1.49
1698400--1698450	24	2.2	22	86	6	66	33	0	3	62	1.13
1698412--1698447	19	1.9	19	88	5	56	33	0	2	63	1.08
1698460--1698501	21	2.0	21	86	13	61	40	0	0	59	0.97
1699134--1699217	33	2.6	32	77	5	87	44	2	1	52	1.21
1699338--1699373	18	1.9	19	88	5	56	52	8	0	38	1.32
1699767--1699833	28	2.4	29	85	5	93	41	1	0	56	1.08
1700941--1700999	16	3.8	15	76	10	57	35	1	0	62	1.05
1700942--1700992	20	2.6	21	75	12	54	33	1	0	64	1.05
1700933--1701005	38	1.9	38	83	10	96	38	1	1	58	1.15
1701679--1701744	33	2.0	33	82	11	82	57	6	0	36	1.23
1706725--1706749	2	12.5	2	100	0	50	52	0	0	48	1.00
1711109--1711135	6	4.5	6	100	0	54	14	33	33	18	1.92
1713295--1713341	20	2.3	20	85	0	58	70	0	4	25	1.05
1713416--1713449	17	2.0	17	94	0	59	55	0	0	44	0.99
1714076--1714120	19	2.4	19	100	0	90	57	0	4	37	1.19
1714114--1714161	23	2.0	24	84	4	62	60	0	0	39	0.97
1714160--1714206	18	2.6	18	80	10	51	42	0	2	55	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1714361--1714404	2	22.0	2	95	0	79	47	0	2	50	1.13
1719626--1719703	20	4.0	20	74	11	65	34	0	0	65	0.93
1719633--1719777	30	4.9	29	73	16	111	36	2	0	60	1.13
1719943--1719982	20	2.1	19	85	4	53	45	0	5	50	1.23
1720285--1720347	21	3.0	22	81	13	78	52	1	0	46	1.10
1720497--1720587	46	2.0	46	89	4	139	62	1	4	31	1.22
1723949--1723975	10	2.7	10	100	0	54	51	7	7	33	1.58
1726476--1726509	15	2.3	15	90	10	52	38	0	2	58	1.13
1726489--1726565	29	2.6	29	85	2	100	41	3	3	50	1.39
1726560--1726598	16	2.4	16	82	0	51	51	5	0	43	1.24
1726585--1726618	16	2.1	16	94	0	59	50	0	0	50	1.00
1727678--1727702	9	2.8	9	100	0	50	80	0	0	20	0.72
1727759--1727794	18	2.0	18	88	0	54	38	33	27	0	1.57
1728841--1728874	2	17.0	2	93	0	59	50	2	0	47	1.16
1731235--1731282	16	3.1	15	82	8	60	56	2	0	41	1.11
1731235--1731284	15	3.3	14	81	15	55	58	2	0	40	1.10
1736776--1736821	12	3.8	12	85	0	56	34	2	52	10	1.49
1753084--1753109	6	4.3	6	100	0	52	50	15	34	0	1.45
1753622--1753652	15	2.1	14	94	5	53	12	3	0	83	0.75
1762054--1762101	23	2.1	23	84	0	60	39	0	0	60	0.97
1762092--1762176	32	2.6	32	76	9	84	43	0	0	56	0.99
1762163--1762190	11	2.5	11	100	0	56	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1762502--1762535	18	1.9	17	94	5	59	73	0	0	26	0.83
1762502--1762535	17	1.9	18	88	5	52	73	0	0	26	0.83
1764260--1764284	13	1.9	13	100	0	50	36	0	0	64	0.94
1764304--1764339	18	1.9	19	94	5	65	58	0	0	41	0.98
1766133--1766187	11	5.0	11	74	24	53	69	0	1	29	0.99
1766551--1766593	4	10.2	4	81	18	52	72	0	0	27	0.85
1766552--1766593	22	1.9	22	90	9	68	71	0	0	28	0.86
1771315--1771359	2	22.5	2	86	0	63	0	55	0	44	0.99
1771315--1771358	12	3.7	12	90	0	70	0	56	0	43	0.99
1771359--1771389	2	15.5	2	100	0	62	48	0	0	51	1.00
1772771--1772815	21	2.1	21	87	4	63	42	2	0	55	1.12
1772787--1772829	21	2.0	21	82	8	52	51	0	0	48	1.00
1773645--1773718	25	2.9	25	84	7	87	50	0	1	48	1.09
1775116--1775149	2	17.0	2	100	0	68	50	0	0	50	1.00
1775449--1775539	46	1.9	48	82	12	118	47	1	1	50	1.15
1777273--1777402	65	2.0	67	92	3	219	30	11	13	43	1.80
1779296--1779341	18	2.5	18	80	19	51	69	0	2	28	1.00
1779296--1779360	10	6.6	10	72	13	55	67	0	1	30	1.00
1779306--1779345	21	1.9	21	85	10	55	67	0	2	30	1.04
1779335--1779414	17	4.8	17	70	22	62	58	0	0	41	0.98
1779378--1779439	27	2.2	28	81	18	76	54	0	0	45	0.99
1788026--1788053	2	14.0	2	100	0	56	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)
1788841--1788887	19	2.4	20	78	7	60	40	0	0	59	0.97
1790234--1790273	2	20.0	2	100	0	80	50	0	0	50	1.00
1792718--1792752	2	17.5	2	100	0	70	0	48	0	51	1.00
1793663--1793710	21	2.3	20	79	10	51	56	2	2	39	1.23
1793844--1793881	13	2.9	13	84	0	58	42	0	0	57	0.98
1794643--1794674	3	10.7	3	93	0	55	65	0	3	31	1.08
1795373--1795413	2	20.5	2	100	0	82	51	0	0	48	1.00
1797314--1797354	2	20.5	2	84	0	55	51	2	43	2	1.28
1809725--1809758	15	2.2	16	89	5	52	41	2	0	55	1.15
1820301--1820364	26	2.4	26	79	12	76	48	0	0	51	1.00

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