genome.fa.s106.2.7.7.80.10.50.1000.11.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  11  of  27  ( 3135 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)
1680256--1680292	18	2.0	19	89	5	58	40	0	2	56	1.13
1683806--1683845	2	20.0	2	100	0	80	50	0	0	50	1.00
1686809--1686846	3	12.7	3	100	0	76	34	0	0	65	0.93
1687471--1687528	24	2.5	22	86	8	80	36	0	1	62	1.06
1688787--1688829	21	2.0	21	86	0	59	30	0	0	69	0.88
1688795--1688834	21	1.9	21	89	0	62	30	0	0	70	0.88
1689107--1689131	10	2.5	10	100	0	50	72	0	0	28	0.86
1689404--1689468	26	2.4	27	75	10	71	38	0	0	61	0.96
1689915--1689962	20	2.5	20	86	6	64	64	0	0	35	0.94
1689930--1689976	20	2.5	19	80	12	53	63	0	2	34	1.06
1690091--1690129	21	1.9	21	89	5	62	46	0	0	53	1.00
1690135--1690173	19	2.0	20	90	5	62	56	2	2	38	1.27
1692153--1692183	15	2.1	15	93	0	53	41	0	22	35	1.54
1696126--1696169	12	2.9	16	78	21	51	29	0	0	70	0.88
1697102--1697179	33	2.4	33	88	0	111	28	39	14	17	1.89
1699454--1699501	18	2.7	17	75	9	51	37	0	0	62	0.95
1699831--1699873	16	2.6	17	78	10	54	46	2	0	51	1.13
1700783--1700818	2	18.0	2	100	0	72	50	0	0	50	1.00
1701817--1701853	20	2.0	20	89	10	60	51	5	5	37	1.48
1702316--1702364	16	2.8	18	78	15	66	55	2	0	42	1.11
1702316--1702357	17	2.5	17	84	11	59	52	2	0	45	1.13
1702437--1702487	18	2.8	17	85	8	57	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1702463--1702495	17	2.0	17	88	5	50	63	0	0	36	0.95
1702460--1702498	18	2.1	18	90	9	60	58	0	0	41	0.98
1705915--1706100	81	2.3	81	97	0	345	26	19	18	35	1.95
1708056--1708114	22	2.6	22	81	7	66	42	3	1	52	1.28
1708786--1708810	3	8.3	3	100	0	50	32	0	0	68	0.90
1712236--1712275	18	2.4	16	87	8	53	60	5	0	35	1.19
1712537--1712587	20	2.5	20	81	9	59	58	0	0	41	0.98
1713148--1713205	29	2.0	29	83	12	75	55	0	0	44	0.99
1713182--1713232	11	5.1	10	75	17	52	58	0	3	37	1.16
1713207--1713247	19	2.2	19	86	8	57	56	2	9	31	1.45
1714629--1714654	5	5.2	5	100	0	52	80	0	19	0	0.71
1715862--1715904	2	21.5	2	100	0	86	48	0	0	51	1.00
1715916--1715950	18	1.9	18	94	0	61	54	0	2	42	1.15
1715924--1715992	12	6.1	12	77	11	74	60	2	1	34	1.20
1715924--1716006	23	3.6	22	79	8	85	60	2	2	34	1.23
1716475--1716522	10	4.3	12	75	15	50	39	0	0	60	0.97
1716475--1716522	22	2.2	22	88	0	69	39	0	0	60	0.97
1720319--1720346	2	14.0	2	100	0	56	50	0	0	50	1.00
1726230--1726263	16	2.1	16	100	0	68	58	17	0	23	1.38
1728949--1728987	20	2.0	20	94	0	69	43	25	0	30	1.55
1735338--1735374	18	2.1	18	85	14	51	43	2	0	54	1.14
1738725--1738781	26	2.2	25	78	3	60	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1739552--1739682	63	2.1	63	82	5	158	48	12	1	37	1.50
1739706--1739766	19	3.3	19	75	15	65	40	0	0	59	0.98
1739706--1739754	17	2.9	17	85	11	57	38	0	0	61	0.96
1742780--1742822	16	2.7	16	82	10	52	53	0	0	46	1.00
1742949--1742988	20	2.0	20	85	14	55	65	2	5	27	1.27
1742962--1743033	32	2.2	32	87	7	101	56	1	4	37	1.27
1743591--1743637	17	2.8	16	81	9	58	59	2	4	34	1.29
1743939--1743986	8	6.5	8	75	15	50	0	14	0	85	0.60
1743939--1743986	14	3.4	14	86	8	71	0	14	0	85	0.60
1743943--1743998	28	2.0	29	82	10	71	3	17	1	76	1.01
1745702--1745736	16	2.2	16	89	0	52	57	2	0	40	1.14
1747780--1747830	18	2.9	17	80	8	57	27	25	0	47	1.53
1750711--1750742	14	2.1	16	88	11	50	34	9	9	46	1.68
1751702--1751915	52	4.1	52	82	7	265	34	7	32	25	1.84
1751702--1751915	103	2.1	105	89	3	326	34	7	32	25	1.84
1753147--1753179	13	2.5	14	85	14	52	75	0	0	24	0.80
1753249--1753279	4	7.8	4	92	0	53	22	0	0	77	0.77
1754113--1754163	8	5.9	9	80	11	54	27	0	0	72	0.85
1754119--1754151	17	2.0	17	94	5	59	30	0	0	69	0.88
1754374--1754401	2	14.0	2	100	0	56	50	0	0	50	1.00
1754979--1755037	28	2.1	28	84	6	75	57	0	5	37	1.21
1755392--1755451	23	2.6	22	76	7	66	48	11	3	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1758477--1758547	27	2.6	27	90	0	106	21	30	9	38	1.86
1761263--1761301	17	2.3	18	86	8	55	17	15	20	46	1.84
1762077--1762134	6	9.8	6	76	12	50	62	0	0	37	0.96
1762060--1762125	25	2.6	27	79	13	86	60	0	1	37	1.06
1773262--1773377	33	3.5	33	83	4	144	18	25	27	28	1.98
1774993--1775060	24	2.8	23	78	12	57	60	2	0	36	1.12
1775092--1775156	32	2.0	34	87	6	98	49	1	0	49	1.10
1775107--1775172	20	3.5	19	74	15	57	46	0	0	53	1.00
1776688--1776729	19	2.4	17	92	8	66	57	2	0	40	1.12
1776682--1776751	25	2.8	25	79	20	76	54	1	1	42	1.18
1776685--1776758	17	4.5	17	71	24	61	54	1	1	43	1.17
1776976--1777012	14	2.8	14	84	8	51	48	0	0	51	1.00
1777016--1777054	16	2.4	17	86	4	53	43	0	0	56	0.99
1777296--1777325	7	4.3	7	91	0	51	53	3	0	43	1.17
1779104--1779228	55	2.3	55	84	4	180	21	8	13	56	1.65
1789226--1789260	14	2.5	14	90	9	54	60	0	0	40	0.97
1789204--1789257	28	2.0	27	81	3	63	55	0	0	44	0.99
1789643--1789697	26	2.2	25	83	9	67	41	1	1	54	1.21
1789660--1789713	27	2.0	26	85	3	72	40	1	0	57	1.09
1791946--1792103	55	2.9	55	91	0	262	24	10	10	55	1.65
1797714--1797742	2	14.5	2	100	0	58	51	0	0	48	1.00
1799089--1799159	35	2.1	34	89	2	106	19	18	23	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1799950--1800330	187	2.0	187	99	0	753	27	19	19	32	1.96
1800606--1800669	2	32.0	2	100	0	128	50	0	0	50	1.00
1801739--1801823	14	6.0	14	72	17	61	57	0	1	41	1.06
1801749--1801799	26	1.9	25	84	11	66	58	0	0	41	0.98
1801937--1801974	18	2.1	18	85	9	51	57	0	0	42	0.98
1802811--1802877	28	2.3	29	82	12	77	61	4	1	32	1.25
1802813--1802884	29	2.5	28	78	13	67	62	4	1	31	1.23
1802894--1802937	17	2.5	17	88	3	61	2	20	2	75	1.03
1803660--1803725	2	33.0	2	100	0	132	50	0	0	50	1.00
1805103--1805127	2	12.5	2	100	0	50	52	0	0	48	1.00
1805846--1805895	17	2.9	17	80	11	57	58	2	0	40	1.10
1806585--1806617	5	6.6	5	92	0	57	0	24	0	75	0.80
1808233--1808259	4	6.8	4	100	0	54	25	0	22	51	1.48
1815891--1815960	34	2.1	34	94	0	122	37	11	20	31	1.88
1815678--1816446	277	2.8	277	94	0	1324	35	11	17	35	1.86
1816172--1816237	34	1.9	34	96	0	123	39	15	18	27	1.90
1816884--1816922	3	13.0	3	100	0	78	66	0	0	33	0.92
1818637--1818693	28	2.2	24	80	20	62	42	0	1	56	1.10
1819160--1819208	25	2.0	23	88	7	71	59	0	0	40	0.98
1819491--1819520	15	2.1	14	93	6	51	56	0	6	36	1.26
1819687--1819736	21	2.4	21	79	0	64	42	0	0	58	0.98
1819713--1819781	22	3.2	22	73	21	56	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1819727--1819790	32	2.0	32	82	11	78	50	0	0	50	1.00
1820001--1820040	7	5.9	7	85	5	55	67	0	2	30	1.04
1821923--1822076	55	2.8	55	86	0	218	22	11	12	54	1.68
1825154--1825255	12	8.7	12	71	8	75	42	9	3	44	1.56
1825162--1825245	36	2.4	34	81	11	98	40	11	4	42	1.63
1826254--1826292	18	2.2	18	100	0	78	15	38	5	41	1.69
1826836--1826874	2	19.5	2	100	0	78	51	0	0	48	1.00
1829150--1829197	3	16.0	3	100	0	96	66	0	0	33	0.92
1830296--1830346	17	2.9	18	82	5	52	41	9	0	49	1.36
1830313--1830346	17	2.0	17	94	0	59	50	5	0	44	1.26

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