genome.fa.s1448.2.7.7.80.10.50.1000.8.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: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1849635

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 993 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)
1598252--1598338	42	2.1	42	95	0	156	26	5	9	58	1.51
1599117--1599180	19	3.4	19	82	4	76	42	7	18	31	1.79
1599125--1599200	19	4.1	18	77	11	55	38	7	19	34	1.81
1599222--1599279	6	9.0	7	73	17	54	53	0	20	25	1.46
1599222--1599279	13	4.5	13	82	4	73	53	0	20	25	1.46
1599222--1599279	25	2.3	26	87	3	82	53	0	20	25	1.46
1599311--1599393	39	2.1	39	93	0	139	26	6	16	50	1.68
1601535--1601591	28	2.0	28	96	0	105	19	12	24	43	1.85
1603246--1603304	2	29.5	2	100	0	118	49	0	0	50	1.00
1605186--1605228	16	2.7	16	79	10	52	44	2	0	53	1.13
1605193--1605231	17	2.4	17	91	4	62	41	5	0	53	1.23
1605874--1605921	16	2.9	16	81	3	60	52	0	0	47	1.00
1605883--1605907	13	1.9	13	100	0	50	48	0	0	52	1.00
1614462--1614523	2	31.0	2	100	0	124	50	0	0	50	1.00
1614879--1614920	20	2.1	20	90	0	66	42	9	19	28	1.82
1614965--1615009	21	2.1	21	87	0	63	46	6	20	26	1.75
1614847--1615022	87	2.0	87	94	1	307	34	8	14	42	1.76
1615319--1615450	31	4.4	31	78	7	112	45	15	6	32	1.71
1616601--1616636	9	4.2	9	86	13	58	36	0	0	63	0.94
1616602--1616635	8	4.1	8	88	3	50	32	0	0	67	0.91
1617656--1617708	26	2.0	26	85	7	72	30	24	20	24	1.99
1620110--1620183	30	2.5	29	84	8	87	44	9	14	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1622441--1622470	12	2.5	12	88	0	51	16	16	20	46	1.84
1627181--1627220	20	2.0	20	95	0	71	25	27	30	17	1.97
1627808--1627991	91	2.0	91	97	0	350	40	24	4	30	1.76
1628100--1628177	23	3.3	23	78	1	84	32	21	20	25	1.98
1629084--1629246	64	2.5	64	78	7	170	27	20	20	31	1.98
1631073--1631112	2	20.0	2	100	0	80	50	0	0	50	1.00
1632389--1632572	91	2.0	91	98	0	359	40	23	5	30	1.77
1632681--1632758	23	3.3	23	80	1	84	33	23	19	24	1.97
1633673--1633827	64	2.4	64	77	8	163	27	21	20	31	1.98
1638810--1638882	23	3.3	23	83	5	89	47	1	5	45	1.34
1638803--1638888	23	3.6	24	80	12	88	47	1	4	46	1.30
1638804--1638970	76	2.2	76	84	11	216	46	1	5	46	1.36
1638831--1638934	51	2.0	51	84	7	136	44	1	6	47	1.40
1638900--1638937	20	1.9	19	89	5	58	47	2	2	47	1.30
1638907--1638964	26	2.3	26	80	11	75	48	1	5	44	1.35
1639761--1639835	35	2.1	35	90	0	114	34	29	26	9	1.88
1639913--1640002	23	3.8	23	82	4	108	37	20	16	25	1.93
1641135--1641170	18	2.0	18	88	0	54	30	16	0	52	1.44
1642446--1642515	13	4.8	15	87	7	67	21	22	38	17	1.93
1642478--1642520	13	3.3	13	100	0	86	13	23	46	16	1.83
1644511--1644585	35	2.1	35	90	0	114	34	29	26	9	1.88
1644666--1644749	24	3.7	23	82	9	109	38	20	16	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644669--1644749	21	3.6	22	83	8	101	38	20	16	24	1.92
1645882--1645917	18	2.0	18	88	0	54	30	16	0	52	1.44
1647187--1647255	15	4.8	15	82	10	67	21	23	37	17	1.94
1647219--1647260	13	3.3	13	93	6	77	14	23	45	16	1.84
1647218--1647257	12	3.2	12	93	6	71	15	25	45	15	1.84
1647187--1647243	8	7.5	8	74	22	52	22	22	36	17	1.94
1648982--1650791	902	2.0	904	97	0	3401	29	14	17	39	1.88
1652316--1652383	21	3.3	21	76	12	70	44	17	17	20	1.87
1652378--1652430	20	2.7	20	90	0	88	26	28	20	24	1.99
1652355--1652450	20	4.7	21	78	7	65	35	23	17	22	1.95
1652618--1652661	22	2.0	22	90	0	70	20	43	15	20	1.88
1652926--1652963	20	1.9	20	88	0	58	13	15	21	50	1.78
1653100--1653154	25	2.2	24	78	15	58	20	9	18	52	1.71
1654283--1654327	18	2.5	18	77	0	54	26	42	13	17	1.86
1654820--1654875	20	2.8	20	75	2	60	39	19	25	16	1.91
1654904--1654994	14	5.9	14	74	20	83	10	17	23	48	1.79
1654899--1655010	33	3.4	33	97	1	208	11	18	22	47	1.81
1654995--1655050	20	2.8	19	86	7	76	16	25	23	35	1.94
1656920--1656955	14	2.6	14	90	0	54	30	0	22	47	1.52
1657092--1657140	19	2.6	19	100	0	98	48	16	20	14	1.80
1657158--1657233	20	3.8	20	72	6	73	17	19	21	42	1.90
1657753--1657784	12	2.8	12	95	4	57	15	37	6	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1658340--1658393	24	2.2	24	90	0	81	22	16	20	40	1.91
1658568--1658592	12	2.1	12	100	0	50	72	0	28	0	0.86
1660885--1661015	19	7.7	19	66	23	94	42	19	22	14	1.88
1660885--1661011	33	3.8	33	88	4	202	42	19	22	14	1.88
1660886--1661018	66	2.0	66	97	0	248	41	19	22	16	1.90
1661011--1661100	33	2.7	33	89	0	135	15	21	20	43	1.88
1661209--1661245	14	2.6	14	91	0	65	45	24	0	29	1.53
1662604--1662809	42	4.9	41	72	9	146	23	18	36	21	1.95
1662604--1662754	21	7.2	21	62	10	58	21	19	37	21	1.94
1662634--1662809	84	2.1	84	96	0	325	23	17	38	20	1.93
1663028--1663212	91	2.0	90	88	6	273	47	18	11	22	1.81
1664839--1664975	19	7.6	19	71	18	105	43	19	23	13	1.86
1664864--1664929	33	2.0	34	93	3	116	37	22	25	13	1.91
1664847--1664975	52	2.4	53	87	2	179	42	20	23	13	1.87
1664980--1665024	19	2.4	19	92	0	72	8	15	26	48	1.74
1665579--1665692	20	5.7	20	81	6	122	23	18	24	33	1.97
1665681--1665732	20	2.5	21	84	3	61	15	25	21	38	1.92
1665763--1665803	21	2.0	21	85	0	55	34	31	17	17	1.93
1676847--1676873	7	3.9	7	100	0	54	44	0	0	55	0.99
1678298--1678347	23	2.2	23	81	0	55	12	28	14	46	1.79
1681206--1681662	102	4.5	102	74	11	372	35	20	11	33	1.88
1681252--1681640	196	2.0	196	89	1	600	34	21	10	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1695984--1696060	18	4.2	18	89	3	109	46	12	6	33	1.68
1697617--1697669	18	3.0	18	80	2	54	47	15	30	7	1.73
1714694--1714788	31	3.3	28	76	8	84	45	8	15	30	1.76
1720042--1720078	19	1.9	19	94	0	65	35	13	8	43	1.74
1729206--1729278	3	24.3	3	100	0	146	67	0	0	32	0.91
1730270--1730723	126	3.6	126	76	7	427	41	13	24	20	1.88
1730392--1730723	130	2.6	130	79	4	311	43	13	22	21	1.87
1734571--1734604	17	2.0	17	94	0	59	50	0	5	44	1.26
1747741--1747776	2	18.0	2	100	0	72	50	0	0	50	1.00
1749761--1749842	31	2.7	31	88	1	112	36	20	19	23	1.95
1757614--1757692	24	3.7	22	75	19	71	30	18	26	24	1.98
1761435--1761468	16	2.1	17	88	5	52	35	0	0	64	0.94
1761464--1761522	30	2.0	29	90	9	93	54	8	6	30	1.57
1762320--1762374	2	27.5	2	100	0	110	50	0	0	49	1.00
1762841--1762868	2	14.0	2	100	0	56	50	0	0	50	1.00
1769378--1769402	3	8.3	3	100	0	50	0	0	32	68	0.90
1776558--1776633	35	2.2	35	95	0	134	39	22	1	36	1.63
1777032--1777277	130	1.9	130	92	0	411	36	15	13	34	1.86
1777044--1777308	130	2.0	129	81	4	309	39	13	13	33	1.84
1777600--1777662	28	2.3	27	78	8	63	46	1	3	49	1.27
1777738--1777774	15	2.4	16	86	13	51	59	5	2	32	1.34
1779653--1779803	30	4.9	30	83	4	185	32	21	19	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1779651--1779802	62	2.5	63	81	9	179	32	21	19	26	1.97
1789546--1789579	16	2.1	17	88	5	52	35	0	0	64	0.94
1789575--1789633	30	2.0	29	90	9	93	54	6	6	32	1.53
1790433--1790485	2	26.5	2	100	0	106	50	0	0	49	1.00
1790952--1790983	2	16.0	2	100	0	64	50	0	0	50	1.00
1800629--1800780	30	4.9	30	83	6	178	33	21	18	26	1.96
1810043--1810076	16	2.1	17	88	5	52	35	0	0	64	0.94
1810072--1810130	30	2.0	29	90	9	93	54	8	6	30	1.57
1810930--1810982	2	26.5	2	100	0	106	50	0	0	49	1.00
1811447--1811478	2	16.0	2	100	0	64	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9