genome.fa.s173.2.7.7.80.10.50.1000.13.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

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

This is table  13  of  16  ( 1814 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)
1664414--1664444	14	2.1	15	94	5	55	38	0	0	61	0.96
1666087--1666129	6	7.2	6	94	0	77	0	34	0	65	0.93
1667040--1667083	21	2.0	22	82	4	54	47	0	0	52	1.00
1668919--1668956	19	2.0	19	94	0	67	50	5	7	36	1.54
1669092--1669167	40	1.9	40	88	0	116	39	11	5	43	1.64
1673154--1673237	31	2.7	31	87	3	116	47	23	5	22	1.73
1673262--1673300	20	1.9	21	94	5	71	71	20	2	5	1.17
1673262--1673306	20	2.3	20	88	11	67	71	22	2	4	1.15
1674010--1674039	2	15.5	2	93	6	53	50	0	0	50	1.00
1674200--1674320	44	2.7	45	79	14	110	54	0	0	45	0.99
1675265--1675300	5	7.2	5	93	0	63	58	2	0	38	1.13
1675465--1675489	1	25.0	1	100	0	50	100	0	0	0	0.00
1676035--1676090	22	2.5	22	88	5	69	55	10	3	30	1.51
1676258--1676311	18	2.9	19	81	10	58	64	0	1	33	1.04
1676523--1676559	13	3.0	13	80	15	51	67	0	2	29	1.04
1678507--1678546	20	1.9	21	85	10	55	37	15	27	20	1.92
1678778--1678823	18	2.6	18	86	10	60	32	4	2	60	1.28
1678821--1678853	17	2.0	17	88	5	50	45	0	0	54	0.99
1679204--1679257	27	2.0	27	82	13	67	48	0	0	51	1.00
1679559--1679611	22	2.4	22	90	0	79	39	3	7	49	1.49
1680144--1680176	2	16.0	2	93	6	57	48	3	0	48	1.17
1681518--1681543	13	2.0	13	100	0	52	38	7	0	53	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1681568--1681601	13	2.5	13	90	4	50	44	0	0	55	0.99
1683403--1683456	19	2.7	20	72	21	58	61	3	3	31	1.31
1683825--1683873	19	2.7	18	84	6	71	61	0	0	38	0.96
1684441--1684557	8	13.5	8	68	26	62	58	0	0	40	1.10
1684443--1684518	32	2.3	34	84	9	102	59	0	1	39	1.06
1684411--1684567	55	2.7	63	80	14	176	60	0	1	37	1.10
1684429--1684543	6	17.6	7	66	25	56	57	0	0	40	1.11
1684418--1684567	9	15.5	10	69	19	72	60	0	1	38	1.10
1685661--1685695	18	1.9	18	94	0	61	25	37	11	25	1.90
1685688--1685722	15	2.3	15	90	0	52	20	22	14	42	1.88
1685740--1685787	21	2.3	21	81	0	60	25	31	25	18	1.98
1685832--1685873	21	2.0	21	100	0	84	28	28	19	23	1.98
1686327--1686359	15	2.2	15	100	0	66	24	21	33	21	1.97
1688598--1688663	11	5.6	11	73	16	53	42	0	1	56	1.08
1688622--1688656	12	2.7	13	86	13	54	48	0	0	51	1.00
1689184--1689236	14	3.5	15	85	15	65	54	1	0	43	1.11
1689489--1689520	6	5.3	6	100	0	64	65	0	0	34	0.93
1689483--1689530	12	4.0	12	86	10	55	60	0	0	39	0.97
1689483--1689530	18	2.7	18	84	12	71	60	0	0	39	0.97
1689600--1689652	21	2.5	21	84	9	63	52	0	1	45	1.11
1691156--1691200	19	2.4	19	85	10	58	37	0	4	57	1.19
1691188--1691251	25	2.4	26	84	12	85	46	0	6	46	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691385--1691413	15	1.9	15	100	0	58	20	27	31	20	1.98
1691469--1691648	15	11.6	14	71	22	89	52	1	0	46	1.07
1691491--1691545	10	5.5	10	77	12	51	49	0	0	50	1.00
1691444--1691648	66	3.1	66	83	9	219	51	0	0	46	1.11
1691446--1691648	16	12.4	16	74	17	168	52	0	0	46	1.11
1691533--1691571	20	1.9	21	89	5	62	53	2	0	43	1.14
1691557--1691674	32	3.7	31	81	8	130	55	1	0	42	1.09
1691611--1691662	26	2.0	27	84	3	70	59	1	0	38	1.08
1695317--1695368	21	2.4	22	77	3	61	57	0	3	38	1.17
1697834--1697897	29	2.2	29	77	5	67	40	1	3	54	1.25
1703995--1704031	2	19.0	2	94	5	67	51	0	0	48	1.00
1704264--1704309	2	23.0	2	90	0	74	50	4	0	45	1.21
1705514--1705559	16	2.8	17	77	12	51	52	0	0	47	1.00
1708444--1708491	20	2.4	20	79	6	53	37	2	6	54	1.38
1717117--1717194	24	3.3	23	77	19	81	46	1	1	51	1.17
1717171--1717215	12	3.3	14	74	25	51	44	0	0	55	0.99
1717557--1717594	17	2.2	17	95	0	67	31	0	0	68	0.90
1718449--1718475	14	1.9	14	100	0	54	22	0	0	77	0.76
1718618--1718672	20	2.8	20	81	15	69	43	0	0	56	0.99
1718803--1718840	18	2.1	19	85	5	51	57	2	0	39	1.12
1718881--1718931	26	2.0	26	84	3	68	52	1	0	45	1.12
1718948--1718985	12	2.9	13	88	11	60	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1719741--1719766	3	8.7	3	100	0	52	30	0	0	69	0.89
1719830--1719907	17	4.5	17	73	16	70	56	1	0	42	1.07
1720092--1720126	17	2.1	17	88	0	52	20	22	37	20	1.95
1720263--1720288	13	2.0	13	100	0	52	23	0	0	76	0.78
1720325--1720376	4	13.0	4	79	0	59	25	9	0	65	1.23
1722018--1722044	13	2.1	13	100	0	54	62	14	14	7	1.51
1726873--1726911	12	3.4	11	82	10	51	79	7	0	12	0.93
1731884--1731963	40	2.1	37	86	11	108	62	10	20	7	1.50
1744333--1744372	21	2.0	20	90	5	62	45	0	0	55	0.99
1744490--1744532	22	2.0	22	81	9	52	48	4	9	37	1.56
1744786--1744831	15	3.1	14	81	9	56	58	0	0	41	0.98
1745315--1745356	21	2.0	21	90	4	68	33	11	2	52	1.51
1745408--1745460	22	2.5	21	79	11	54	50	1	3	43	1.30
1746639--1746696	28	2.2	25	82	14	64	39	0	0	60	0.97
1746762--1746794	17	1.9	17	88	11	50	60	0	0	39	0.97
1746771--1746820	22	2.2	22	82	3	55	64	0	0	36	0.94
1746779--1746821	22	1.9	22	90	4	68	58	0	0	41	0.98
1746800--1746862	31	2.0	31	81	6	74	57	1	0	41	1.08
1750573--1750600	2	14.0	2	100	0	56	50	0	0	50	1.00
1750876--1750969	48	2.0	48	89	0	143	28	19	12	39	1.88
1753334--1753376	21	2.0	21	90	0	68	34	0	0	65	0.93
1753663--1753798	57	2.5	53	83	8	148	46	3	4	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1753772--1753806	17	2.1	17	100	0	70	34	5	5	54	1.48
1755784--1755815	15	2.1	16	94	5	57	40	0	0	59	0.97
1755819--1755868	16	3.1	16	79	0	55	60	0	0	40	0.97
1756220--1756260	15	2.6	16	85	14	59	36	0	7	56	1.27
1757169--1757206	17	2.2	18	86	13	53	44	0	0	55	0.99
1758398--1758453	26	2.1	27	81	15	64	55	0	1	42	1.10
1760278--1760320	20	2.3	18	84	11	52	53	2	0	44	1.13
1761249--1761295	21	2.4	20	86	10	62	6	19	23	51	1.70
1765706--1766187	258	1.9	258	87	1	707	31	20	22	25	1.98
1766500--1767499	402	2.5	398	81	5	1146	33	15	24	26	1.95
1769644--1769739	47	2.0	47	97	0	183	28	22	10	38	1.87
1772535--1772560	13	2.0	13	100	0	52	38	15	15	30	1.88
1774292--1774324	17	2.0	17	88	5	50	54	12	27	6	1.60
1776632--1776662	15	2.1	15	93	0	53	48	16	22	12	1.80
1778747--1778771	13	1.9	13	100	0	50	32	20	16	32	1.94
1778883--1778928	21	2.2	20	81	11	58	32	19	4	43	1.71
1781343--1781368	13	2.0	13	100	0	52	38	15	15	30	1.88
1783951--1783983	16	2.1	16	88	11	50	45	0	0	54	0.99
1784860--1784899	15	2.6	17	77	22	52	70	0	15	15	1.18
1784942--1784987	24	1.9	24	100	0	92	58	4	4	32	1.37
1785339--1785376	16	2.6	15	84	16	53	57	0	0	42	0.98
1786478--1786527	18	2.8	18	82	14	59	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)
1786779--1786874	43	2.3	41	82	7	113	44	0	1	54	1.07
1786959--1787013	27	2.0	28	85	3	76	29	5	3	61	1.35
1787496--1787566	23	3.1	23	76	11	74	61	0	0	38	0.96
1787483--1787574	31	3.0	29	82	14	98	60	0	0	39	0.97
1787484--1787539	15	3.7	15	77	15	62	57	0	0	42	0.99
1794387--1794411	8	3.1	8	100	0	50	48	0	12	40	1.40
1795603--1795631	10	3.0	10	95	5	51	6	0	0	93	0.36
1796673--1796741	35	2.0	35	88	5	104	30	28	17	23	1.97
1798490--1798585	27	3.7	26	75	14	83	34	32	12	20	1.90
1798519--1798597	12	6.3	12	69	23	56	35	30	12	21	1.91

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