genome.fa.s105.2.7.7.80.10.50.1000.11.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

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

This is table  11  of  16  ( 1849 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)
1699463--1699501	16	2.3	18	86	8	55	30	2	0	66	1.05
1700102--1700135	18	1.9	17	88	5	50	52	2	0	44	1.16
1700271--1700345	24	3.4	24	67	32	76	42	9	12	36	1.74
1700266--1700355	42	2.1	42	100	0	180	42	10	11	36	1.74
1700285--1700354	24	3.2	24	64	35	66	41	10	11	37	1.75
1702989--1703048	31	2.0	30	83	9	77	61	1	0	36	1.06
1703008--1703039	11	2.6	13	80	19	50	62	0	0	37	0.95
1702984--1703067	38	2.3	36	84	8	100	59	1	0	39	1.05
1703088--1703153	15	4.4	15	72	25	59	62	0	0	37	0.96
1703098--1703156	11	6.1	9	72	27	50	62	0	0	37	0.95
1703089--1703185	28	3.5	26	74	17	72	60	1	0	38	1.03
1707004--1707298	163	1.8	163	80	1	358	28	16	18	36	1.93
1713932--1713970	2	20.0	2	94	5	71	48	0	0	51	1.00
1714360--1714412	16	3.1	17	81	10	54	54	1	0	43	1.11
1714813--1714872	18	3.5	17	73	10	50	45	0	0	55	0.99
1715198--1715282	15	5.6	15	73	18	70	29	0	1	69	0.96
1715189--1715286	36	2.7	37	79	16	98	31	0	1	67	0.98
1715234--1715293	23	2.7	22	82	14	79	35	0	0	65	0.93
1715226--1715293	15	4.7	14	77	15	59	35	0	0	64	0.94
1715196--1715293	20	4.8	20	77	18	71	31	0	1	67	0.98
1715286--1715322	17	2.2	17	86	13	51	48	16	5	29	1.68
1724126--1724153	12	2.3	12	100	0	56	92	0	7	0	0.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1724705--1724732	2	14.0	2	100	0	56	50	0	0	50	1.00
1725147--1725186	20	2.0	20	85	4	55	47	0	0	52	1.00
1725214--1725301	18	5.1	18	70	20	71	52	1	2	44	1.21
1725281--1725347	23	2.8	23	76	10	64	44	0	1	53	1.09
1725281--1725330	24	2.1	23	85	3	64	46	0	0	54	1.00
1725286--1725346	24	2.7	23	74	20	56	45	0	1	52	1.10
1725342--1725403	30	2.2	29	83	13	76	35	3	3	58	1.31
1725342--1725403	27	2.2	29	83	13	76	35	3	3	58	1.31
1728070--1728113	18	2.3	20	80	11	56	63	0	2	34	1.07
1728082--1728193	20	6.1	19	68	20	60	56	0	0	43	0.99
1728096--1728196	32	3.2	31	85	5	139	54	0	0	45	0.99
1728082--1728236	63	2.5	62	73	18	160	54	0	0	45	0.99
1728762--1728870	18	6.3	19	69	24	71	44	0	0	54	1.06
1728842--1728886	7	6.0	7	82	12	54	37	0	0	62	0.96
1728774--1728899	32	3.6	34	80	13	132	42	0	0	56	1.05
1729154--1729241	24	3.5	25	71	17	76	61	0	0	38	0.96
1729164--1729223	19	3.3	18	74	21	54	66	0	0	33	0.92
1729176--1729267	32	2.8	33	85	8	116	60	0	0	39	0.97
1729188--1729277	27	3.1	28	81	12	92	58	0	0	41	0.98
1729188--1729263	20	3.8	20	66	30	54	59	0	0	40	0.98
1729186--1729297	14	7.6	16	64	23	50	58	0	0	41	0.98
1729793--1729817	6	4.2	6	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1730151--1730198	16	2.9	17	80	17	57	77	0	0	22	0.78
1731917--1731958	16	2.6	16	88	0	57	57	0	2	40	1.12
1732066--1732102	2	20.0	2	84	15	53	54	0	0	45	1.00
1732770--1732809	20	2.0	20	95	0	71	77	0	0	22	0.77
1733410--1733447	2	19.5	2	83	5	51	44	0	5	50	1.24
1735336--1735442	54	2.0	53	94	1	187	37	5	10	46	1.61
1737842--1737879	3	12.7	3	100	0	76	34	0	0	65	0.93
1739697--1739731	2	18.0	2	88	5	54	2	48	0	48	1.16
1745013--1745049	2	18.5	2	94	0	65	48	0	0	51	1.00
1745198--1745236	17	2.4	17	86	4	62	48	0	0	51	1.00
1745230--1745255	9	2.9	9	100	0	52	23	0	0	76	0.78
1745336--1745395	29	2.1	28	87	3	84	58	0	5	36	1.20
1745784--1745819	2	18.0	2	100	0	72	50	0	0	50	1.00
1747860--1747901	17	2.3	19	84	8	61	66	0	0	33	0.92
1749980--1750009	5	5.8	5	96	4	51	0	0	76	23	0.78
1750406--1750430	2	12.5	2	100	0	50	0	52	0	48	1.00
1755180--1755236	31	2.0	29	83	13	73	29	24	15	29	1.96
1756529--1756578	27	1.9	25	84	8	64	42	0	4	54	1.19
1756708--1756745	14	2.6	15	83	8	51	78	0	21	0	0.74
1757606--1757652	11	4.3	11	79	15	53	34	0	0	65	0.93
1757665--1757699	10	3.6	10	92	3	54	28	0	0	71	0.86
1757659--1757704	18	2.6	17	83	10	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)
1757850--1757922	3	24.7	3	88	2	112	30	0	4	65	1.11
1766383--1766446	2	32.0	2	100	0	128	50	0	0	50	1.00
1769483--1769598	45	2.6	44	82	4	133	27	12	37	23	1.90
1773746--1773771	2	13.0	2	100	0	52	50	0	0	50	1.00
1775711--1775780	16	4.4	16	71	16	56	41	1	1	55	1.17
1775711--1775796	18	5.2	17	70	19	58	40	1	1	56	1.14
1775691--1775815	32	3.8	33	77	9	121	37	0	0	60	1.08
1782593--1782620	12	2.3	12	100	0	56	57	0	0	42	0.99
1784337--1784368	2	16.0	2	100	0	64	50	0	0	50	1.00
1787649--1787713	22	2.8	25	71	26	61	33	3	0	63	1.10
1787682--1787722	18	2.3	18	87	4	57	34	2	0	63	1.08
1788309--1788359	17	3.1	17	76	18	54	56	0	0	43	0.99
1788863--1788895	16	2.1	16	94	0	57	3	12	0	84	0.72
1789221--1789277	30	1.9	30	88	0	87	49	5	7	38	1.53
1789464--1789510	22	2.0	23	84	15	62	10	19	0	70	1.16
1789853--1789906	22	2.4	23	78	9	67	61	1	0	37	1.07
1790552--1790617	23	2.9	23	86	2	80	51	18	0	30	1.46
1791525--1791554	2	15.0	2	92	0	51	46	0	3	50	1.18
1794355--1794395	20	2.0	20	85	4	55	29	0	4	65	1.13
1795894--1795931	19	2.0	19	85	10	51	50	0	0	50	1.00
1796700--1796746	22	2.1	23	84	11	62	48	0	0	51	1.00
1796668--1796735	33	2.0	34	83	13	88	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1796827--1796893	34	2.0	33	85	11	91	61	0	0	38	0.96
1796876--1796926	15	3.2	16	74	17	52	54	3	0	41	1.19
1796834--1796928	17	5.7	17	69	17	65	57	2	0	40	1.10
1797365--1797411	16	2.9	16	84	9	51	27	2	2	68	1.13
1797365--1797446	21	4.1	20	78	15	71	30	1	1	67	1.06
1797540--1797636	32	3.1	30	79	15	101	65	2	1	30	1.10
1797539--1797630	12	7.8	12	71	22	54	65	2	1	31	1.12
1797557--1797630	13	4.9	16	67	25	54	67	1	1	29	1.07
1799804--1799831	2	14.0	2	100	0	56	50	0	0	50	1.00
1803889--1803936	24	2.0	24	88	8	71	60	2	0	37	1.09
1805935--1805975	14	2.9	14	92	3	64	41	0	14	43	1.45
1808951--1808984	8	4.0	9	88	11	54	58	0	0	41	0.98
1808993--1809027	11	3.1	11	88	8	52	40	0	0	60	0.97
1809569--1809635	34	2.0	33	85	11	91	61	0	0	38	0.96
1809674--1809711	11	3.9	10	83	16	53	57	0	0	42	0.98
1809832--1809921	28	3.4	27	79	8	78	26	6	21	45	1.76
1812492--1812537	21	2.1	22	84	4	58	30	19	30	19	1.97
1814423--1814512	28	3.4	27	79	8	78	26	7	20	45	1.78
1814999--1815078	17	4.8	17	73	15	60	31	0	0	68	0.90
1815019--1815076	19	3.2	18	75	15	57	29	0	0	70	0.87
1815246--1815317	32	2.3	30	85	7	90	55	1	0	43	1.08
1815254--1815323	17	4.2	17	74	17	58	54	1	0	44	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817121--1817145	11	2.3	11	100	0	50	92	0	8	0	0.40
1817903--1817982	33	2.5	30	82	11	88	23	0	6	70	1.10
1817942--1818009	26	2.6	27	82	13	81	20	1	4	73	1.08
1817947--1818033	16	5.1	17	69	20	65	20	1	4	73	1.07
1818935--1819086	34	4.4	34	94	0	250	38	36	0	24	1.60
1823801--1823987	34	5.5	34	95	0	329	41	35	0	23	1.55
1827152--1827226	34	2.2	32	79	9	78	44	0	0	56	0.99
1827495--1827543	25	1.9	26	91	4	82	22	0	2	75	0.90
1827500--1827579	8	9.4	8	75	12	52	18	1	3	76	1.01
1827459--1827548	33	2.7	33	81	8	103	23	0	4	72	1.03

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