genome.fa.s202.2.7.7.80.10.50.1000.10.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: Scaffold202
Parameters: 2 7 7 80 10 50 1000
Length:  2706578

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

This is table  10  of  16  ( 1899 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)
1669469--1669498	3	10.0	3	92	0	51	33	3	63	0	1.11
1669947--1669980	16	2.1	16	94	0	59	44	2	0	52	1.16
1672842--1672875	16	2.1	16	94	0	59	44	2	0	52	1.16
1673520--1673559	16	2.4	17	83	8	55	45	0	2	52	1.14
1674648--1674697	23	2.0	23	85	11	64	66	2	4	28	1.21
1675136--1675191	29	1.9	29	88	0	85	42	10	0	46	1.38
1675783--1675816	16	2.1	16	89	10	52	52	5	2	38	1.41
1683039--1683080	20	2.1	20	95	0	75	16	4	30	47	1.67
1683478--1683508	2	15.5	2	100	0	62	51	0	0	48	1.00
1684418--1684447	2	15.0	2	100	0	60	50	0	0	50	1.00
1684592--1684619	2	14.0	2	100	0	56	50	0	0	50	1.00
1687208--1687238	3	10.3	3	100	0	62	67	0	0	32	0.91
1688897--1688943	21	2.2	22	77	11	53	46	4	0	48	1.21
1690808--1690833	2	13.0	2	100	0	52	50	0	0	50	1.00
1692316--1692357	22	1.9	22	90	9	68	59	0	4	35	1.19
1694583--1694617	2	17.5	2	100	0	70	51	0	0	48	1.00
1695387--1695425	20	2.0	20	89	0	60	35	2	0	61	1.10
1695575--1695603	2	15.0	2	92	7	51	51	0	0	48	1.00
1699183--1699212	2	15.0	2	100	0	60	50	0	0	50	1.00
1701837--1701905	33	2.2	31	81	5	75	28	5	5	59	1.44
1701854--1701925	31	2.2	33	83	11	87	27	8	5	58	1.50
1704388--1704441	22	2.5	22	82	14	76	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1705236--1705288	26	2.0	27	92	7	90	60	0	0	39	0.97
1705236--1705299	32	2.1	29	83	13	76	59	1	0	39	1.07
1705647--1705682	12	3.1	12	92	4	56	72	5	0	22	1.05
1713653--1713708	29	1.9	29	85	0	76	51	1	1	44	1.22
1713877--1713945	29	2.4	30	83	9	90	60	1	2	34	1.20
1714863--1714965	27	4.0	26	70	13	77	48	12	6	32	1.67
1716375--1716418	16	2.8	16	82	6	54	47	0	0	52	1.00
1716427--1716459	17	1.9	17	88	11	50	57	0	3	39	1.14
1719576--1719657	37	2.2	37	88	2	119	43	14	6	35	1.70
1719712--1719805	47	2.0	47	81	4	109	47	12	10	28	1.75
1720173--1720225	9	6.0	9	86	4	72	43	0	1	54	1.11
1720894--1720920	3	9.0	3	100	0	54	66	0	33	0	0.92
1722230--1722264	2	17.5	2	100	0	70	48	0	0	51	1.00
1722393--1722431	20	2.0	20	90	10	62	64	0	0	35	0.94
1729910--1729952	22	1.9	22	90	4	68	0	20	0	79	0.74
1730187--1730263	27	2.9	27	94	1	129	35	14	16	33	1.89
1732273--1732472	97	2.1	95	80	5	215	38	21	9	32	1.84
1735025--1735051	2	13.5	2	100	0	54	51	0	48	0	1.00
1735985--1736022	19	2.0	19	94	0	67	34	31	0	34	1.58
1736971--1737134	82	2.0	82	96	0	301	27	23	15	33	1.95
1740411--1740468	27	2.3	27	85	8	77	37	1	5	55	1.33
1740444--1740518	29	2.6	29	76	14	75	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744012--1744070	20	3.2	20	79	15	56	45	0	0	54	0.99
1748104--1748138	2	17.5	2	100	0	70	51	0	48	0	1.00
1748646--1748767	2	61.5	2	80	1	120	44	3	4	47	1.41
1751666--1751705	9	4.8	9	76	17	50	45	0	0	55	0.99
1751985--1752015	16	1.9	16	93	0	53	64	3	6	25	1.33
1752016--1752059	22	2.0	22	86	8	63	61	4	0	34	1.16
1752006--1752052	18	2.7	17	83	6	58	68	4	0	27	1.08
1751987--1752059	18	4.2	17	70	13	51	63	4	1	31	1.22
1753332--1753369	20	1.9	20	84	10	51	21	7	5	65	1.38
1753473--1753529	26	2.2	26	81	12	64	40	5	0	54	1.23
1753516--1753551	17	2.2	17	90	5	56	47	0	0	52	1.00
1753483--1753570	43	2.0	42	80	8	97	43	3	0	53	1.17
1753869--1753915	17	2.8	17	84	9	53	61	0	2	36	1.08
1754135--1754198	21	2.8	24	72	18	64	48	0	1	50	1.10
1754145--1754198	21	2.4	22	80	20	67	50	0	1	48	1.11
1754449--1754540	37	2.4	37	77	8	105	31	2	2	64	1.18
1755051--1755089	20	2.0	19	90	5	60	69	0	25	5	1.09
1755058--1755088	16	1.9	16	93	0	53	74	0	22	3	0.96
1755372--1755438	23	2.9	23	80	13	75	20	1	11	65	1.33
1755597--1755621	10	2.5	10	100	0	50	40	0	0	60	0.97
1755949--1756006	8	6.8	8	75	13	53	31	0	1	67	1.01
1755942--1755995	17	3.1	18	76	7	58	31	0	1	66	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1755949--1756007	17	3.4	16	80	13	64	30	0	1	67	1.00
1755960--1756033	28	2.6	26	81	14	76	31	0	1	67	0.99
1755929--1756031	18	5.7	18	69	20	63	33	0	0	65	1.00
1756076--1756151	14	5.4	14	76	16	68	43	0	0	56	0.99
1756831--1756879	24	2.0	24	100	0	98	14	16	20	48	1.80
1757555--1757580	6	4.3	6	100	0	52	34	0	50	15	1.45
1757932--1757987	29	1.9	29	88	0	85	37	3	3	55	1.35
1758617--1758819	101	2.0	101	96	1	372	19	15	17	48	1.82
1763864--1763902	19	2.0	20	90	5	62	61	0	7	30	1.24
1765499--1765552	20	2.7	19	86	11	65	33	16	14	35	1.90
1767557--1767583	13	2.1	13	100	0	54	29	14	14	40	1.86
1767567--1767623	19	2.9	19	84	2	78	31	19	17	31	1.95
1767590--1767748	63	2.5	63	95	2	284	31	17	19	31	1.95
1767738--1767838	13	9.0	13	63	30	63	34	12	19	32	1.90
1767715--1767784	33	2.1	34	89	7	108	34	12	20	32	1.90
1767747--1767838	21	4.8	20	71	25	83	34	11	20	32	1.89
1767715--1767838	54	2.3	54	97	0	230	34	12	20	32	1.90
1770863--1770900	16	2.4	16	86	0	58	31	10	5	52	1.58
1774161--1774195	15	2.3	15	95	0	61	28	28	0	42	1.56
1776056--1776130	20	3.8	20	74	0	78	33	14	13	38	1.85
1776056--1776133	40	2.0	39	84	2	102	33	14	14	38	1.86
1790108--1790173	19	3.3	19	85	8	87	89	9	1	0	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1790108--1790163	24	2.2	24	93	6	94	91	8	0	0	0.43
1790108--1790184	24	3.3	23	85	5	91	87	9	2	1	0.71
1790108--1790173	1	66.0	1	78	0	69	89	9	1	0	0.55
1791401--1792519	28	38.9	29	88	4	1431	28	31	17	22	1.97
1791401--1792519	115	9.7	114	89	3	1502	28	31	17	22	1.97
1793080--1793154	20	3.8	20	78	0	87	33	13	13	40	1.83
1793080--1793157	40	2.0	39	87	2	111	33	12	14	39	1.84
1796888--1796931	22	2.0	21	87	12	63	59	0	0	40	0.98
1797080--1797182	15	6.1	18	72	16	71	39	0	0	60	0.97
1797139--1797195	15	3.7	15	76	17	62	42	0	0	57	0.98
1797145--1797196	16	3.1	18	71	28	60	44	0	0	55	0.99
1799801--1799827	1	27.0	1	100	0	54	0	0	100	0	0.00
1800907--1800954	23	2.1	22	84	3	60	52	8	2	37	1.44
1800953--1800992	21	2.0	20	85	5	53	57	2	0	40	1.12
1801007--1801056	21	2.4	20	83	6	55	58	0	0	42	0.98
1801505--1801551	21	2.2	22	85	11	71	46	0	0	53	1.00
1802684--1802741	20	2.8	20	81	2	62	43	0	0	56	0.99
1802677--1802750	29	2.5	31	82	10	93	45	0	1	52	1.09
1804056--1804088	15	2.2	15	94	0	57	21	9	51	18	1.73
1808226--1808264	17	2.3	17	86	8	53	66	0	0	33	0.92
1808806--1808865	2	33.0	2	73	18	51	45	0	1	53	1.10
1808925--1808969	17	2.6	17	82	6	56	24	4	0	71	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809267--1809338	32	2.2	34	76	16	80	54	2	0	43	1.15
1809394--1809443	19	2.5	19	80	6	55	38	6	0	56	1.24
1809487--1809541	11	5.3	11	75	18	55	38	3	0	58	1.16
1810160--1810197	19	2.0	20	89	5	60	73	0	0	26	0.83
1810212--1810252	11	3.2	13	80	16	50	46	0	2	51	1.14
1811231--1811290	15	4.0	15	88	0	93	38	0	1	60	1.07
1813189--1813219	16	1.9	16	93	0	53	61	3	0	35	1.12
1813937--1813987	15	3.2	16	77	8	59	45	0	0	54	0.99
1815166--1815199	11	3.0	11	86	4	50	64	0	0	35	0.94
1815162--1815212	23	2.3	23	80	6	61	64	0	0	35	0.94

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