genome.fa.s52.2.7.7.80.10.50.1000.9.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: Scaffold52
Parameters: 2 7 7 80 10 50 1000
Length:  1774672

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1067 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)
1645222--1645277	29	1.9	29	82	7	69	7	21	1	69	1.22
1649723--1649843	40	3.0	40	67	8	111	48	7	2	41	1.44
1650804--1650831	3	9.3	3	100	0	56	67	0	32	0	0.91
1650984--1651018	12	2.9	12	91	0	52	8	17	57	17	1.64
1653112--1653142	2	15.5	2	100	0	62	51	0	0	48	1.00
1663394--1663460	32	2.2	32	84	10	86	32	0	1	65	1.02
1663421--1663481	9	6.9	9	75	7	54	32	0	0	67	0.91
1663422--1663481	11	5.3	11	74	18	52	33	0	0	66	0.92
1663400--1663495	19	5.2	19	75	9	81	33	0	2	64	1.05
1663394--1663500	32	3.4	30	74	15	83	32	0	2	64	1.08
1664119--1664250	11	11.0	12	66	22	55	32	0	4	62	1.15
1664560--1664624	33	1.9	34	84	3	87	40	0	0	60	0.97
1665588--1665613	2	13.0	2	100	0	52	50	0	0	50	1.00
1666461--1666497	15	2.5	15	91	4	58	29	5	8	56	1.51
1666427--1666604	93	1.9	95	79	9	204	30	6	4	58	1.44
1669542--1669571	2	15.0	2	100	0	60	50	0	0	50	1.00
1671654--1671707	24	2.3	24	83	3	65	48	0	7	44	1.31
1674272--1674308	19	2.0	18	89	5	56	48	0	0	51	1.00
1674873--1674910	19	2.0	20	84	5	51	57	2	0	39	1.12
1674873--1674984	46	2.3	48	78	17	117	56	1	0	41	1.10
1684499--1684565	29	2.3	29	84	7	82	20	2	14	61	1.47
1684981--1685174	96	2.0	96	100	0	388	31	21	16	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1687068--1687142	39	1.9	39	97	0	141	25	12	28	34	1.91
1689514--1689572	26	2.2	26	81	3	73	22	6	18	52	1.68
1695256--1695291	16	2.3	16	90	4	56	52	0	0	47	1.00
1695933--1695979	13	3.6	13	80	5	51	55	0	2	42	1.12
1698084--1698108	12	2.1	12	100	0	50	68	0	0	32	0.90
1699007--1699082	39	1.9	40	84	7	102	50	0	0	50	1.00
1699094--1699136	18	2.2	20	88	8	63	65	2	0	32	1.06
1699094--1699145	19	2.8	19	80	8	54	61	1	0	36	1.07
1699315--1699363	19	2.4	21	80	10	57	44	0	0	55	0.99
1699367--1699418	21	2.4	22	77	6	61	61	0	0	38	0.96
1699886--1699955	5	15.2	5	73	18	55	37	0	0	62	0.95
1699881--1699950	12	5.6	13	74	17	60	38	0	0	61	0.96
1699923--1699971	18	2.8	17	85	11	64	30	0	0	69	0.89
1700071--1700141	21	3.4	21	77	16	76	49	0	0	50	1.00
1700120--1700163	21	2.0	21	86	8	61	47	4	0	47	1.22
1700918--1700966	21	2.3	22	82	3	64	42	0	2	55	1.11
1701803--1701908	17	6.6	17	69	25	63	55	0	0	44	0.99
1701796--1701884	32	2.7	33	84	10	119	55	0	0	44	0.99
1702170--1702212	16	2.5	18	81	14	63	65	0	2	32	1.06
1703426--1703474	18	2.7	18	78	15	55	48	12	14	24	1.77
1708186--1708247	16	3.8	16	72	10	54	59	12	3	24	1.48
1708186--1708258	33	2.3	31	76	9	74	57	13	4	24	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708251--1708295	19	2.4	19	81	3	56	57	13	6	22	1.59
1708652--1708711	28	2.1	29	82	14	72	30	13	8	48	1.71
1710662--1710735	4	19.2	4	71	8	55	47	22	2	27	1.65
1711564--1711608	23	2.0	23	86	8	65	66	6	0	26	1.16
1711850--1711902	20	2.6	20	84	3	61	35	7	0	56	1.28
1712195--1712252	29	2.0	29	89	0	89	37	8	20	32	1.83
1712865--1712921	18	3.1	18	71	2	60	50	0	0	49	1.00
1713188--1713252	17	3.6	18	75	19	64	53	3	0	43	1.16
1713523--1713557	14	2.5	14	90	0	52	42	0	0	57	0.99
1714098--1714136	18	2.0	20	85	9	55	53	2	0	43	1.14
1714365--1714411	2	23.5	2	86	0	67	46	6	0	46	1.28
1717374--1717402	2	15.0	2	92	7	51	51	0	0	48	1.00
1719528--1719625	27	3.6	26	75	15	65	55	2	4	38	1.31
1719837--1719876	20	2.0	21	90	5	64	65	0	2	32	1.06
1720398--1720430	2	16.5	2	100	0	66	51	0	0	48	1.00
1722782--1722849	35	1.9	35	84	0	91	47	30	2	19	1.64
1723908--1723960	20	2.7	20	81	0	70	33	3	0	62	1.13
1728697--1728738	20	2.1	20	82	8	50	54	0	0	45	0.99
1729538--1729591	26	2.2	25	84	15	69	51	0	1	46	1.11
1729845--1729896	12	4.4	12	87	2	70	69	1	0	28	0.99
1733176--1733209	12	2.9	11	91	8	50	61	0	0	38	0.96
1734600--1734656	28	2.0	28	86	0	78	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)
1735765--1735807	20	2.1	19	83	12	50	53	2	2	41	1.26
1736047--1736097	2	25.5	2	95	0	93	49	1	0	49	1.12
1736107--1736187	32	2.7	28	81	12	90	62	0	3	33	1.12
1738925--1738997	4	18.5	4	77	2	58	47	23	1	27	1.59
1738959--1739015	19	3.2	19	75	14	66	45	28	1	24	1.63
1739807--1739844	12	3.2	12	88	7	60	71	2	0	26	1.00
1739807--1739842	11	3.2	11	92	4	54	72	2	0	25	0.98
1740266--1740292	2	13.5	2	100	0	54	48	0	0	51	1.00
1741410--1741474	13	5.5	12	74	15	55	50	0	0	49	1.00
1741416--1741471	29	1.9	29	82	13	71	48	0	0	51	1.00
1741395--1741474	36	2.3	35	83	12	103	52	0	0	47	1.00
1741399--1741464	23	2.8	24	77	6	64	48	0	0	51	1.00
1744668--1744696	3	9.7	3	100	0	58	65	0	0	34	0.93
1746174--1746216	2	21.5	2	100	0	86	48	0	0	51	1.00
1746780--1746851	19	4.2	17	77	14	60	65	5	0	29	1.15
1746815--1746852	16	2.4	16	83	12	51	68	5	0	26	1.11
1747412--1747483	35	2.1	35	94	0	126	41	6	23	27	1.80
1750745--1750873	67	1.9	67	85	3	179	45	2	7	44	1.45
1751807--1751865	2	30.0	2	93	3	93	50	3	0	45	1.18
1753597--1753621	2	12.5	2	100	0	50	52	0	0	48	1.00
1753789--1753830	11	3.6	11	84	9	57	54	2	0	42	1.13
1753789--1753839	25	2.1	25	85	10	70	52	1	0	45	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1754187--1754228	13	3.3	13	80	6	50	64	4	0	30	1.14
1758990--1759020	2	15.5	2	93	0	53	48	0	0	51	1.00
1760266--1760290	2	12.5	2	100	0	50	48	0	0	52	1.00
1760610--1760638	2	14.5	2	100	0	58	51	0	0	48	1.00
1761190--1761223	7	4.9	7	85	0	50	50	0	0	50	1.00
1761183--1761223	21	2.0	21	85	0	55	56	0	0	43	0.99
1761331--1761397	20	3.4	20	75	13	68	41	0	0	58	0.98
1761358--1761383	8	3.2	8	100	0	52	38	0	0	61	0.96
1761373--1761405	11	3.0	11	91	8	50	36	0	3	60	1.12
1761679--1761704	3	8.7	3	100	0	52	69	0	0	30	0.89
1762466--1762508	14	3.1	14	80	6	52	48	2	2	46	1.27
1762831--1762866	19	2.0	17	89	10	54	61	0	0	38	0.96
1766561--1766628	6	12.7	6	70	26	55	67	1	0	30	0.99
1766561--1766627	10	6.9	10	77	17	70	68	1	0	29	0.98
1766724--1766763	20	2.0	21	90	5	64	65	0	0	35	0.93
1767150--1767189	20	2.1	19	90	4	62	40	0	5	55	1.22
1767150--1767190	11	3.9	11	78	12	50	39	0	4	56	1.21
1768431--1768471	18	2.3	18	95	0	73	39	19	14	26	1.90
1769591--1769633	22	2.0	22	95	0	77	32	11	13	41	1.81

Tables:   1   2   3   4   5   6   7   8   9

The End!