genome.fa.s8526.2.7.7.80.10.50.1000.7.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: VEPZ01008526.1 Hibiscus syriacus cultivar Beakdansim tig00111398_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3043201

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  7  of  12  ( 1346 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)
1563153--1563259	20	5.3	20	91	0	142	23	19	20	36	1.95
1563151--1563270	40	3.0	40	80	2	116	23	19	20	37	1.94
1563743--1563841	21	4.7	21	75	3	92	23	35	19	22	1.96
1563740--1563850	42	2.6	42	74	5	116	21	36	18	23	1.94
1565232--1565267	14	2.6	14	90	0	54	30	0	22	47	1.52
1565373--1565426	14	3.5	14	73	22	54	44	20	24	11	1.83
1565373--1565445	33	2.2	34	97	2	139	45	19	23	12	1.84
1565463--1565538	33	2.3	34	93	2	127	13	22	19	44	1.85
1565533--1565598	20	3.3	20	87	4	98	18	21	25	34	1.96
1568031--1568083	24	2.2	24	93	0	88	39	20	18	20	1.92
1568926--1568992	20	3.3	20	91	4	100	23	19	23	32	1.97
1569008--1569053	21	2.2	21	92	0	74	39	17	26	17	1.91
1570702--1570741	21	2.0	21	90	5	64	22	5	2	70	1.19
1576526--1576558	16	2.1	16	100	0	66	54	0	18	27	1.44
1577438--1577488	2	26.5	2	77	15	54	50	1	0	47	1.12
1577560--1577609	25	2.0	25	88	0	73	44	6	18	32	1.74
1579674--1579713	19	2.1	19	86	9	55	22	12	25	40	1.89
1584961--1585065	52	2.0	52	94	0	183	21	18	12	47	1.81
1593120--1593167	18	2.7	18	87	3	71	33	8	29	29	1.86
1598303--1598327	13	1.9	13	100	0	50	56	0	4	40	1.18
1605375--1605414	20	2.0	20	90	5	62	62	10	15	12	1.54
1610327--1610384	23	2.6	23	94	5	102	39	3	12	44	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610398--1610432	13	2.8	13	91	4	54	57	0	0	42	0.99
1613426--1613466	8	5.2	8	82	5	57	34	0	29	36	1.58
1613534--1614263	126	5.8	126	99	0	1417	22	26	20	31	1.98
1614651--1614750	33	3.0	34	83	2	139	39	3	4	54	1.35
1615276--1615381	21	5.0	21	93	3	160	20	22	36	19	1.95
1615276--1615408	63	2.1	63	80	8	146	21	21	36	20	1.95
1615388--1615435	21	2.3	21	85	0	60	22	12	39	25	1.89
1617151--1617239	34	2.7	32	75	10	90	58	2	0	39	1.11
1617154--1617226	15	4.7	15	70	18	51	58	1	0	39	1.06
1618147--1618184	2	19.0	2	100	0	76	50	0	0	50	1.00
1637527--1637559	15	2.1	17	88	11	52	45	6	15	33	1.70
1637555--1637597	21	2.0	21	81	0	50	58	6	6	27	1.50
1644507--1644578	29	2.6	28	72	12	76	19	0	25	55	1.43
1645412--1645455	21	2.1	21	91	0	70	31	0	9	59	1.29
1647765--1647862	29	3.1	29	66	23	72	34	7	7	51	1.57
1647777--1647879	33	3.2	33	66	27	92	33	8	5	52	1.56
1647765--1647910	65	2.2	65	96	0	265	35	7	6	50	1.58
1647788--1647891	33	3.2	33	65	26	94	33	7	5	52	1.54
1648349--1648377	2	14.5	2	100	0	58	48	0	0	51	1.00
1673316--1673350	18	1.9	18	88	0	52	62	2	5	28	1.32
1673733--1673763	2	15.5	2	100	0	62	51	0	0	48	1.00
1686031--1686077	23	1.9	26	87	12	73	68	2	4	25	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1687427--1687452	5	5.2	5	100	0	52	23	57	19	0	1.40
1689477--1689516	22	1.9	20	85	10	53	50	7	5	37	1.53
1689754--1689790	2	18.5	2	100	0	74	51	0	0	48	1.00
1690743--1690808	15	4.1	17	74	20	61	68	0	1	30	0.99
1692089--1692154	31	2.1	31	85	0	87	40	9	24	25	1.84
1693397--1693536	57	2.4	61	80	13	152	31	13	16	38	1.87
1693781--1693940	60	2.7	60	81	3	162	40	15	11	33	1.83
1694348--1694385	19	2.0	19	85	10	51	60	5	0	34	1.19
1695683--1695782	24	4.2	24	69	5	76	50	16	11	23	1.76
1698288--1698330	13	3.3	13	93	0	77	13	20	46	18	1.83
1700395--1700494	24	4.2	24	72	10	87	47	16	14	23	1.82
1700388--1700496	48	2.3	48	75	3	112	48	15	13	22	1.80
1703017--1703062	18	2.6	18	89	0	74	13	19	50	17	1.78
1705166--1705207	21	2.0	21	100	0	84	42	14	9	33	1.78
1716147--1716199	16	3.5	15	73	17	56	58	13	5	22	1.56
1727008--1727108	50	2.0	50	100	0	202	19	13	18	47	1.82
1735540--1735589	24	2.0	25	84	3	66	60	4	0	36	1.16
1735803--1735833	4	7.8	4	100	0	62	51	22	0	25	1.48
1737904--1737937	17	2.0	17	94	0	59	50	5	2	41	1.42
1738656--1738714	22	2.5	24	81	8	68	61	0	0	38	0.96
1738639--1738712	37	2.0	37	84	5	96	60	0	2	36	1.11
1740723--1740784	19	3.4	19	75	20	78	74	1	4	19	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1740717--1740788	35	2.1	35	100	0	144	70	2	5	20	1.20
1745647--1745878	120	1.9	120	90	1	367	36	16	10	36	1.83
1746364--1746417	7	7.6	7	75	4	54	42	5	1	50	1.36
1746921--1747063	78	1.9	77	88	5	218	48	13	3	33	1.60
1762046--1762123	23	3.4	23	85	1	95	43	28	14	14	1.83
1772481--1772566	42	2.0	43	97	2	165	51	4	9	34	1.55
1782910--1782953	22	2.0	22	100	0	88	50	9	13	27	1.72
1783240--1783274	14	2.5	14	95	0	61	14	17	14	54	1.72
1783525--1783591	23	2.9	23	84	0	80	14	4	16	64	1.45
1783598--1783678	31	2.6	31	92	0	126	48	16	11	24	1.78
1784689--1784758	35	2.0	35	91	0	113	25	27	20	27	1.99
1787776--1787823	21	2.3	20	82	10	60	39	0	0	60	0.97
1787781--1787839	26	2.2	26	84	6	82	45	0	0	54	0.99
1796244--1796284	20	2.0	20	100	0	82	51	4	4	39	1.45
1806526--1806577	15	3.2	17	77	22	67	36	19	0	44	1.51
1806520--1806567	14	3.2	14	76	23	53	37	16	0	45	1.48
1834480--1834504	12	2.1	12	100	0	50	20	32	16	32	1.94
1838563--1838601	15	2.5	15	87	4	51	0	20	0	79	0.73
1852365--1852437	31	2.6	27	78	19	87	47	2	6	42	1.44
1852384--1852444	31	2.0	31	100	0	122	52	3	6	37	1.44
1853948--1854041	45	2.1	45	85	0	125	36	10	24	28	1.89
1854656--1854725	28	2.6	27	75	13	63	35	7	1	55	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1856231--1856286	22	2.7	21	83	8	69	33	10	26	28	1.90
1863632--1863666	2	18.0	2	94	5	63	51	0	0	48	1.00
1871265--1871333	21	3.3	21	81	4	86	31	26	18	23	1.97
1871348--1871415	21	3.2	21	95	0	118	23	23	23	29	1.99
1874582--1874616	9	3.9	9	84	0	52	0	54	0	45	0.99
1874576--1874607	15	2.1	15	94	0	55	0	50	0	50	1.00
1874588--1874619	12	2.7	12	90	0	55	0	53	0	46	1.00
1874579--1874619	18	2.3	18	95	0	73	0	51	0	48	1.00
1875175--1875354	36	5.0	36	74	4	157	12	17	29	40	1.87
1879621--1879696	38	2.0	38	100	0	152	50	7	7	34	1.61
1884119--1884156	14	2.5	16	83	8	53	57	7	0	34	1.28
1885476--1886001	188	2.8	185	77	6	520	28	19	13	38	1.89
1885476--1886069	187	3.2	185	76	4	546	27	19	13	39	1.89
1888640--1888712	31	2.4	31	95	0	128	57	23	6	12	1.59
1890762--1890810	21	2.4	20	83	12	64	4	26	0	69	1.06
1890762--1890810	10	4.8	10	87	7	64	4	26	0	69	1.06
1890912--1890958	24	1.9	25	82	4	60	68	2	6	23	1.24
1897041--1897099	28	2.1	28	90	6	93	50	30	6	11	1.65
1897967--1897993	14	1.9	14	100	0	54	51	0	0	48	1.00
1903409--1903462	27	2.0	27	92	0	90	64	12	9	12	1.49
1912379--1912426	25	2.0	25	87	4	71	50	4	2	43	1.33
1922835--1922874	21	2.0	21	85	9	57	35	5	15	45	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1924706--1924980	137	2.0	139	87	4	396	45	3	6	44	1.46
1924883--1924952	15	4.5	15	74	10	61	51	0	2	45	1.16
1924886--1924952	31	2.2	31	84	10	84	50	0	2	46	1.16
1925837--1925880	22	2.0	22	82	8	54	50	2	0	47	1.13
1934368--1934406	11	3.6	11	86	6	53	28	0	25	46	1.53
1940448--1940730	80	3.5	80	91	0	449	29	21	18	30	1.97
1941102--1941218	38	3.2	38	81	9	170	22	21	21	35	1.96
1952572--1952614	2	21.5	2	100	0	86	48	0	0	51	1.00
1962993--1963080	40	2.3	39	86	4	115	42	10	9	38	1.71
1973383--1973417	15	2.3	15	100	0	70	45	11	8	34	1.71

Tables:   1   2   3   4   5   6   7   8   9   10   11   12