genome.fa.s8001.2.7.7.80.10.50.1000.9.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2081 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)
1628021--1628047	12	2.2	12	100	0	54	7	18	14	59	1.58
1629612--1629646	18	1.9	18	100	0	70	45	0	2	51	1.16
1630209--1630273	29	2.3	29	81	7	71	46	4	13	35	1.64
1635001--1635058	30	1.9	30	82	0	71	29	18	8	43	1.80
1635009--1635111	31	3.5	28	73	15	82	29	18	7	44	1.77
1642164--1642277	26	4.3	26	96	1	210	0	22	27	49	1.56
1644207--1644479	54	5.1	54	93	0	474	16	37	21	25	1.93
1647252--1647325	31	2.4	31	83	0	94	20	13	13	52	1.73
1648062--1648144	39	2.1	39	93	0	139	49	16	7	26	1.72
1648294--1648340	19	2.6	18	83	6	58	27	12	8	51	1.69
1650927--1651114	103	1.8	101	89	2	295	29	29	17	22	1.97
1662269--1662342	31	2.4	31	83	0	103	52	14	13	18	1.74
1662477--1662546	31	2.3	31	94	0	122	52	15	11	20	1.73
1663643--1663780	37	3.7	37	91	0	204	44	13	11	30	1.80
1664498--1664564	11	6.3	11	74	19	52	23	0	2	73	0.97
1664497--1664565	29	2.4	30	79	13	81	23	0	2	73	0.96
1664634--1664696	4	15.2	4	75	6	54	19	4	0	76	0.96
1664652--1664698	15	3.2	14	77	19	51	14	6	0	78	0.93
1664634--1664699	8	8.0	8	79	12	62	18	4	0	77	0.94
1665385--1665435	25	2.0	25	81	7	59	62	0	0	37	0.95
1665373--1665457	34	2.5	34	98	0	161	60	0	0	40	0.97
1669504--1669546	21	2.0	21	86	0	59	41	6	37	13	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1670350--1670410	32	1.9	32	89	0	95	19	3	18	59	1.52
1671306--1671724	83	5.1	83	81	2	466	28	18	16	35	1.93
1671306--1671724	165	2.5	165	84	0	523	28	18	16	35	1.93
1671507--1671906	220	1.8	220	84	4	547	30	18	17	33	1.94
1675039--1675153	50	2.3	50	89	3	169	44	23	1	30	1.64
1684957--1685076	41	3.0	40	71	12	109	28	17	23	30	1.97
1685093--1685196	41	2.5	41	78	4	111	34	13	23	28	1.92
1685583--1685631	22	2.2	22	89	7	73	42	10	16	30	1.81
1686638--1686765	41	3.1	42	72	8	120	30	18	17	32	1.95
1698825--1698930	18	5.8	18	68	21	60	51	0	1	45	1.18
1698827--1698948	15	7.0	17	70	19	74	50	1	1	46	1.21
1698827--1698930	33	3.1	32	76	15	88	50	0	1	46	1.18
1701919--1701984	24	2.8	24	92	0	96	27	15	15	42	1.86
1712424--1712456	15	2.1	16	88	5	50	60	0	0	39	0.97
1712534--1712614	42	2.0	41	85	2	108	49	7	2	40	1.44
1712631--1712676	19	2.4	19	85	7	58	45	0	0	54	0.99
1712875--1712957	14	5.9	14	72	10	71	38	4	1	55	1.29
1735903--1735928	2	13.0	2	100	0	52	50	0	0	50	1.00
1745392--1745420	14	2.0	15	93	6	51	34	10	0	55	1.34
1746561--1746592	3	10.7	3	100	0	64	65	0	0	34	0.93
1746674--1746714	18	2.4	17	87	4	55	41	12	0	46	1.41
1746682--1746795	24	5.7	18	66	30	63	40	12	0	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1746693--1746746	24	2.2	24	83	9	65	37	7	1	53	1.40
1746669--1746791	43	3.0	41	80	11	153	40	11	0	47	1.45
1749097--1749164	35	2.0	34	88	5	102	23	22	29	25	1.99
1749193--1749268	37	2.0	38	89	2	118	30	21	23	25	1.99
1749480--1749536	18	2.9	19	78	14	71	45	10	14	29	1.78
1750656--1750703	19	2.5	20	89	3	71	29	12	6	52	1.63
1752095--1752168	37	2.0	38	89	2	114	27	20	25	27	1.99
1752382--1752438	18	2.9	19	75	14	71	47	12	10	29	1.74
1754141--1754216	22	3.8	21	70	22	74	27	14	27	30	1.95
1754470--1754518	18	2.5	19	83	12	64	40	12	10	36	1.77
1754483--1754519	18	2.1	18	94	0	65	45	8	10	35	1.69
1756812--1756851	21	1.9	22	90	10	66	12	10	40	37	1.77
1760414--1760652	4	56.8	4	70	21	120	67	0	8	23	1.17
1760414--1760619	21	9.5	21	89	8	324	67	0	8	23	1.18
1769507--1769545	19	2.1	19	95	0	69	30	10	17	41	1.83
1770319--1770349	14	2.2	14	100	0	62	29	41	12	16	1.85
1773872--1773969	33	3.0	33	90	3	153	23	28	17	30	1.97
1774242--1774324	21	4.2	19	73	11	69	24	18	24	33	1.96
1774245--1774321	39	2.0	40	86	2	111	23	19	23	33	1.97
1774261--1774387	66	2.0	64	88	3	191	20	17	25	36	1.94
1776477--1776512	16	2.3	17	81	18	51	36	0	5	58	1.22
1776799--1776918	59	2.0	59	100	0	240	39	15	20	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777810--1777927	41	2.8	42	88	2	184	17	17	17	46	1.84
1778221--1778268	18	2.7	18	83	6	53	56	0	2	41	1.11
1778145--1778284	56	2.4	58	81	11	157	49	0	1	48	1.15
1778660--1778726	15	4.5	15	90	3	91	37	16	7	38	1.77
1779055--1779200	56	2.6	55	79	10	145	50	0	1	47	1.14
1779154--1779199	18	2.6	17	83	6	65	50	0	2	47	1.13
1779167--1779199	10	3.5	10	84	16	52	51	0	0	48	1.00
1779117--1779199	25	3.0	28	72	16	75	49	0	1	49	1.08
1779179--1779235	23	2.5	22	82	5	60	50	1	1	45	1.22
1778016--1779839	903	2.0	920	90	8	2890	44	8	6	40	1.62
1779551--1779589	20	2.0	20	84	0	51	33	17	7	41	1.79
1779563--1779643	15	5.5	15	85	5	103	38	17	6	38	1.75
1779563--1779643	29	2.8	30	83	7	96	38	17	6	38	1.75
1780384--1780461	39	2.0	39	100	0	156	30	38	5	25	1.78
1789247--1789333	2	49.5	2	71	28	74	41	0	1	57	1.06
1789229--1789336	13	8.1	14	81	16	124	40	0	0	58	1.04
1789234--1789336	5	21.6	5	77	21	98	40	0	0	58	1.05
1789245--1789333	22	4.3	21	81	18	100	41	0	1	57	1.06
1790322--1790348	14	1.9	14	100	0	54	62	0	0	37	0.95
1794568--1794605	20	1.9	19	85	15	51	31	5	10	52	1.58
1799740--1799784	17	2.6	17	82	6	56	44	0	2	53	1.13
1804370--1804395	3	8.7	3	100	0	52	0	30	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1815356--1815411	23	2.4	23	75	0	67	17	46	0	35	1.49
1819466--1820525	523	2.0	523	98	0	2039	31	19	17	32	1.94
1820775--1820810	15	2.4	15	100	0	72	33	25	27	13	1.94
1822004--1822035	13	2.5	13	95	5	57	15	18	18	46	1.84
1827542--1827592	9	5.7	9	78	0	57	5	50	5	37	1.51
1827542--1827592	18	2.8	18	90	0	75	5	50	5	37	1.51
1827534--1827592	27	2.2	27	84	0	73	8	50	5	35	1.55
1829131--1829197	19	3.6	18	87	4	89	37	14	0	47	1.45
1829589--1830347	182	4.2	182	88	2	1091	27	15	12	43	1.83
1830195--1830509	162	1.9	162	91	0	513	28	15	12	43	1.84
1830357--1830768	182	2.3	182	89	3	618	26	14	14	44	1.83
1830016--1830712	344	2.0	344	95	0	1268	27	15	13	44	1.83
1846239--1846352	60	1.9	60	85	3	158	30	23	5	40	1.77
1846242--1846372	60	2.2	60	80	5	149	30	25	6	37	1.82
1846503--1846566	30	2.2	29	86	10	87	40	6	25	28	1.79
1847478--1847507	15	2.0	15	93	0	51	26	56	13	3	1.52
1858419--1858463	23	2.0	23	100	0	90	28	26	22	22	1.99
1858503--1858720	103	2.1	103	93	0	364	38	23	12	26	1.90
1859467--1859629	64	2.5	64	77	7	161	26	21	19	32	1.97
1864240--1864300	23	2.7	23	89	0	86	31	26	21	21	1.98
1864324--1864541	103	2.1	103	93	0	373	36	24	13	25	1.92
1869762--1869838	23	3.3	23	75	1	73	33	19	19	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1869845--1870062	103	2.1	103	91	0	346	37	22	12	27	1.90
1875582--1875659	23	3.3	23	81	1	93	32	23	20	24	1.98
1875670--1875883	103	2.1	103	91	0	347	38	23	11	26	1.88
1876630--1876700	20	3.4	20	70	11	70	19	26	26	26	1.99
1876650--1876724	23	3.4	23	70	10	84	20	28	24	28	1.99
1876627--1876723	43	2.3	43	100	0	194	18	27	25	27	1.98
1890273--1890330	30	2.0	29	81	15	68	48	1	10	39	1.48
1895449--1895481	8	4.1	8	100	0	66	63	0	36	0	0.95
1896253--1896288	10	3.6	10	84	0	54	58	11	11	19	1.62
1899005--1899056	28	1.9	28	85	14	74	50	5	0	44	1.26

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18