genome.fa.s140.2.7.7.80.10.50.1000.11.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  11  of  20  ( 2326 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)
1661149--1661210	31	2.0	31	87	6	90	67	0	0	32	0.91
1662453--1662538	37	2.2	42	80	14	103	61	1	0	37	1.04
1663259--1663287	14	2.0	15	93	6	51	48	27	17	6	1.72
1664803--1664850	25	1.9	25	86	0	69	66	0	2	31	1.03
1665310--1665372	15	3.9	16	73	21	51	66	0	0	33	0.92
1666050--1666101	26	2.0	26	96	0	95	28	15	17	38	1.90
1666439--1666478	20	2.0	20	85	9	55	45	0	5	50	1.23
1666389--1666587	108	1.9	105	84	6	265	33	7	5	53	1.51
1671923--1671973	11	4.5	11	75	18	50	31	3	1	62	1.24
1672352--1672422	11	6.7	11	68	26	55	54	0	1	43	1.08
1672354--1672400	25	1.9	24	86	4	67	53	0	2	44	1.12
1672341--1672426	32	2.8	30	80	17	106	55	0	2	41	1.12
1672367--1672430	18	3.7	18	71	23	57	53	0	1	45	1.10
1673611--1673665	25	2.2	25	84	9	69	61	0	3	34	1.13
1677739--1677780	9	4.6	9	84	3	57	40	0	0	59	0.97
1677739--1677817	5	16.0	5	75	17	67	44	0	0	55	0.99
1677740--1677816	18	3.9	18	75	17	73	45	0	0	54	0.99
1678531--1678601	22	3.1	23	76	13	76	57	0	0	42	0.98
1681507--1681535	2	14.5	2	100	0	58	48	0	0	51	1.00
1690224--1690261	19	2.1	19	85	9	53	10	5	2	81	0.94
1690524--1690596	37	2.0	37	88	0	110	27	19	5	47	1.71
1691489--1691515	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693415--1693458	13	3.5	13	81	3	54	54	4	0	40	1.21
1695057--1695090	2	17.0	2	93	0	59	47	0	2	50	1.16
1695753--1695851	36	2.8	35	75	18	96	47	1	1	50	1.14
1696413--1696460	15	3.2	15	75	18	55	52	0	2	45	1.12
1696413--1696479	31	2.1	30	83	10	80	55	0	4	40	1.20
1698115--1698151	16	2.3	16	100	0	74	21	5	21	51	1.68
1698398--1698657	130	2.0	130	91	1	423	39	5	32	22	1.78
1698755--1699225	235	2.0	235	92	0	789	29	17	16	37	1.91
1701521--1701568	3	16.0	3	100	0	96	66	0	0	33	0.92
1701628--1701707	28	2.8	28	82	3	88	40	1	3	55	1.26
1701628--1701710	29	2.9	29	81	3	105	40	1	3	54	1.26
1701659--1701753	29	3.4	29	77	12	74	46	1	1	51	1.15
1701700--1701756	27	2.1	27	87	9	80	47	1	0	50	1.11
1701673--1701756	29	3.0	28	81	6	82	45	1	0	53	1.08
1701753--1701801	16	2.9	16	74	11	53	61	2	2	34	1.19
1701896--1702033	73	1.9	73	83	0	177	31	20	19	28	1.97
1704545--1704585	22	1.9	22	85	5	57	58	2	0	39	1.11
1704643--1704724	33	2.4	35	82	11	100	36	2	0	60	1.10
1707431--1707484	2	30.5	2	72	23	50	46	0	1	51	1.11
1707431--1707484	20	2.6	22	77	19	62	46	0	1	51	1.11
1707906--1707944	15	2.7	15	88	4	53	35	0	2	61	1.10
1708023--1708056	10	3.5	10	92	4	52	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708639--1708702	29	2.2	28	83	5	74	46	0	1	51	1.10
1708647--1708703	29	2.0	30	86	6	82	47	0	1	50	1.11
1709424--1709508	27	3.2	28	78	8	90	56	4	1	37	1.28
1709619--1709658	2	21.0	2	80	19	50	47	0	2	50	1.14
1711275--1711322	13	3.8	12	78	13	51	41	2	2	54	1.24
1712663--1712704	22	2.0	22	90	9	70	66	0	0	33	0.92
1714492--1714525	14	2.5	13	90	9	59	91	0	8	0	0.43
1730288--1730318	16	1.9	16	93	0	53	38	0	0	61	0.96
1731513--1731567	23	2.4	23	96	0	101	34	12	34	18	1.89
1733054--1733082	2	14.5	2	100	0	58	51	0	48	0	1.00
1733247--1733287	10	4.2	10	79	17	50	36	0	0	63	0.95
1733248--1733321	16	4.2	18	73	16	66	41	0	0	58	0.98
1733267--1733318	14	3.4	14	78	19	59	44	0	0	55	0.99
1733256--1733328	18	4.2	17	71	18	62	43	0	0	56	0.99
1733262--1733335	32	2.2	33	85	9	105	43	0	0	56	0.99
1733549--1733602	24	2.2	25	78	15	60	37	0	0	62	0.95
1733641--1733678	17	2.2	18	85	4	51	60	0	2	36	1.11
1733631--1733677	25	1.9	24	83	12	60	61	0	2	36	1.08
1734901--1734928	2	14.0	2	100	0	56	50	0	0	50	1.00
1736275--1736304	15	2.0	15	93	0	51	50	0	0	50	1.00
1736463--1736514	3	17.3	3	100	0	104	34	0	0	65	0.93
1738222--1738274	22	2.4	21	87	6	70	69	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1739424--1739476	16	3.1	17	81	10	56	67	0	1	30	1.01
1739438--1739480	23	1.9	22	85	4	59	74	0	0	25	0.82
1739447--1739480	16	2.1	16	89	10	52	76	0	0	23	0.79
1740372--1740428	28	2.0	29	86	3	80	56	1	0	42	1.10
1740813--1740854	2	21.0	2	95	0	75	47	0	2	50	1.14
1742827--1742867	9	4.3	10	84	9	59	63	0	0	36	0.95
1742835--1742872	19	2.0	19	94	0	67	60	0	0	39	0.97
1743602--1743648	11	4.6	11	75	24	50	68	0	0	31	0.90
1743600--1743648	17	2.8	17	81	3	62	67	0	0	32	0.91
1745719--1745748	15	2.1	14	93	6	51	53	0	0	46	1.00
1746711--1746743	3	11.0	3	100	0	66	66	0	0	33	0.92
1747007--1747042	2	18.0	2	100	0	72	50	0	0	50	1.00
1748683--1748722	21	1.9	21	85	10	55	62	0	0	37	0.95
1756241--1756425	92	2.0	92	98	0	361	51	19	8	20	1.71
1757871--1757927	24	2.2	27	79	17	68	33	0	0	66	0.92
1758149--1758246	37	2.7	38	74	13	98	51	2	1	45	1.19
1758148--1758253	36	2.9	33	75	15	95	51	2	0	44	1.22
1760139--1760172	15	2.2	16	89	5	52	38	2	5	52	1.41
1761727--1761779	28	1.9	27	85	11	72	50	0	5	43	1.25
1762545--1762578	16	2.1	17	88	5	52	55	0	0	44	0.99
1763160--1763209	19	2.8	19	77	19	54	50	0	0	50	1.00
1763171--1763213	20	2.2	20	83	8	52	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1763221--1763310	11	8.7	11	71	22	63	60	0	0	40	0.97
1763221--1763339	21	5.5	21	67	25	70	57	0	0	42	0.98
1763225--1763345	42	3.0	40	77	19	135	57	0	0	42	0.99
1763223--1763356	67	2.1	61	79	10	144	55	0	0	44	0.99
1763229--1763356	53	2.5	55	80	15	141	56	0	0	43	0.99
1769244--1769276	13	2.4	14	85	10	50	51	3	0	45	1.16
1769482--1769507	3	8.7	3	100	0	52	65	0	0	34	0.93
1770586--1770630	2	23.5	2	86	8	67	46	0	0	53	1.00
1772517--1772578	28	2.1	31	88	11	96	58	0	0	41	0.98
1772517--1772578	27	2.1	30	85	11	85	58	0	0	41	0.98
1774742--1774768	13	2.1	13	100	0	54	29	0	0	70	0.88
1774926--1774978	20	2.7	19	77	5	61	22	0	3	73	0.99
1775368--1775397	2	15.0	2	92	0	51	46	0	3	50	1.18
1775614--1775646	16	2.2	16	89	10	52	63	6	0	30	1.18
1775712--1775746	2	17.5	2	100	0	70	51	0	0	48	1.00
1775893--1775921	11	2.6	11	100	0	58	27	0	0	72	0.85
1776731--1776802	16	4.4	16	72	18	51	59	0	0	40	0.97
1778714--1778775	25	2.4	26	71	10	65	56	0	0	43	0.99
1778723--1778777	22	2.4	24	85	8	71	56	0	0	43	0.99
1779143--1779194	21	2.4	22	83	6	70	46	0	0	53	1.00
1779161--1779213	25	2.1	25	82	0	61	39	0	1	58	1.09
1780212--1780251	19	2.1	19	86	9	55	52	0	2	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1780641--1780668	2	14.0	2	100	0	56	50	0	0	50	1.00
1781528--1781553	2	13.0	2	100	0	52	50	0	0	50	1.00
1782198--1782222	2	12.5	2	100	0	50	52	0	0	48	1.00
1783626--1783667	16	2.6	16	85	7	59	7	35	7	50	1.57
1788413--1788437	13	1.9	13	100	0	50	52	0	0	48	1.00
1789750--1789808	30	2.0	30	83	3	75	40	5	3	50	1.41
1789796--1789872	40	1.9	40	81	5	93	28	7	1	62	1.31
1789834--1789875	11	3.6	12	78	15	52	35	7	0	57	1.26
1793861--1793905	18	2.5	18	96	0	81	17	28	11	42	1.84
1796574--1796771	105	1.9	109	87	8	302	38	15	0	45	1.50

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20