genome.fa.s9350.2.7.7.80.10.50.1000.8.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: VEPZ01009350.1 Hibiscus syriacus cultivar Beakdansim tig00113145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2139524

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1079 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)
1708390--1708418	14	2.0	15	93	6	51	62	10	6	20	1.50
1709179--1709230	17	3.1	17	82	0	68	44	9	9	36	1.70
1712173--1712212	21	1.9	21	94	0	71	22	42	2	32	1.67
1712712--1712873	47	3.4	47	83	5	191	24	22	9	43	1.82
1713265--1713321	20	2.7	22	86	8	82	28	22	12	36	1.90
1713294--1713510	95	2.3	96	86	2	287	28	23	16	31	1.96
1713458--1713512	20	2.7	21	88	5	78	29	20	20	30	1.97
1719709--1719787	27	3.2	27	64	23	73	22	20	12	44	1.85
1719631--1719960	47	7.0	47	86	1	446	22	23	10	43	1.84
1719598--1719960	140	2.6	141	83	3	453	23	22	10	43	1.84
1720347--1720384	20	1.9	20	94	0	67	28	21	10	39	1.86
1720373--1720569	95	2.1	95	84	3	263	27	23	16	32	1.96
1735820--1735870	19	2.6	20	87	3	68	45	5	15	33	1.71
1739150--1739200	19	2.6	20	90	3	77	47	5	13	33	1.67
1749669--1749769	47	2.2	46	87	3	141	29	23	6	39	1.81
1749899--1749978	38	2.1	39	90	4	126	32	25	16	26	1.96
1754320--1754384	29	2.2	30	94	5	123	46	6	12	35	1.66
1755641--1755741	47	2.2	46	87	3	141	29	23	6	39	1.81
1759706--1759816	12	9.2	11	75	23	75	5	17	1	75	1.07
1759706--1759816	6	18.3	6	71	13	68	5	17	1	75	1.07
1759737--1759787	21	2.4	21	87	6	68	5	17	1	74	1.11
1759724--1759785	26	2.4	25	86	7	88	4	17	1	75	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1759703--1759816	33	3.4	33	80	13	110	5	16	1	76	1.05
1759723--1759794	21	3.7	20	74	20	62	5	16	1	76	1.05
1759701--1759816	17	6.8	17	72	19	89	6	16	1	75	1.08
1759706--1759816	36	3.1	37	82	14	110	5	17	1	75	1.07
1759757--1759831	35	2.1	34	80	9	80	10	13	2	73	1.20
1762599--1762724	47	2.8	45	82	5	137	31	23	6	38	1.80
1762829--1762910	40	2.0	40	97	0	155	32	25	17	24	1.96
1764763--1764971	112	1.9	111	87	1	310	33	16	13	36	1.88
1764985--1765018	18	1.9	18	94	5	61	26	32	11	29	1.92
1765376--1765445	34	2.1	34	94	0	122	34	24	8	32	1.86
1765674--1765746	21	3.5	21	92	0	119	35	17	10	35	1.85
1768414--1768576	47	3.5	47	89	0	245	23	22	11	42	1.86
1768489--1768562	20	3.3	20	67	22	58	17	25	12	44	1.83
1769059--1769098	21	1.9	21	84	0	53	60	0	37	2	1.11
1769070--1769104	18	1.9	18	94	0	61	60	0	40	0	0.97
1769061--1769109	12	4.2	12	82	12	57	61	0	36	2	1.08
1769053--1769108	27	2.1	27	86	0	76	57	0	41	1	1.09
1773312--1773343	17	1.9	16	93	6	55	62	9	0	28	1.26
1774559--1774614	10	5.4	10	72	16	51	32	0	19	48	1.49
1774557--1774618	21	3.0	21	97	0	115	32	0	20	46	1.51
1777681--1777715	18	2.0	18	88	5	54	40	25	5	28	1.78
1778717--1778764	21	2.3	21	77	0	60	25	6	43	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1780240--1780271	15	2.1	16	94	5	57	71	6	12	9	1.29
1788893--1788921	14	2.0	15	93	6	51	62	10	6	20	1.50
1789686--1789726	17	2.4	17	87	4	55	48	12	9	29	1.72
1789684--1789752	18	3.9	18	82	3	86	44	13	10	31	1.76
1791009--1791095	29	3.0	28	80	6	86	40	13	3	42	1.61
1797811--1797886	19	4.1	19	70	16	59	19	28	19	31	1.97
1798372--1798400	13	2.2	13	100	0	58	48	6	0	44	1.29
1803072--1803131	30	2.1	29	81	9	70	45	8	18	28	1.78
1803050--1803196	67	2.2	67	92	1	242	38	12	17	31	1.87
1803137--1803246	51	2.2	52	85	6	145	39	11	20	28	1.88
1803076--1803313	117	2.0	118	89	2	363	39	12	19	28	1.88
1803235--1803352	37	3.4	36	67	15	95	38	12	19	28	1.89
1803189--1803352	67	2.5	67	87	2	224	39	12	21	26	1.88
1803647--1803821	37	4.8	37	83	4	185	38	11	18	31	1.87
1803647--1803844	74	2.7	73	78	6	202	38	12	18	30	1.87
1806178--1806219	22	1.9	22	85	9	59	4	11	7	76	1.15
1809771--1809800	3	10.0	3	100	0	60	66	0	0	33	0.92
1814648--1814744	25	3.9	25	92	6	162	25	15	20	38	1.92
1814860--1814941	3	27.3	3	94	0	146	65	1	1	31	1.08
1815276--1815600	46	7.6	42	72	11	225	24	18	31	26	1.97
1815141--1815597	130	3.5	129	90	3	648	24	17	30	27	1.97
1815242--1815568	43	7.5	42	71	13	207	23	18	31	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1815646--1815707	28	2.2	28	82	5	81	50	12	12	24	1.76
1815845--1815933	37	2.4	38	81	9	103	37	11	12	39	1.79
1815843--1815946	38	2.8	37	80	11	113	36	10	13	39	1.79
1816225--1816268	15	2.9	15	93	0	70	43	4	20	31	1.72
1816257--1816331	31	2.4	30	82	8	80	40	13	14	32	1.85
1816425--1816549	64	2.0	63	87	3	180	43	12	14	30	1.82
1816744--1816856	37	3.2	36	67	17	112	46	14	11	28	1.79
1816717--1816880	67	2.5	65	86	3	238	45	14	10	29	1.78
1816822--1816890	28	2.5	28	90	4	104	43	14	7	34	1.73
1816977--1817088	29	4.1	25	80	13	89	47	14	8	29	1.74
1816992--1817243	29	8.7	29	71	13	144	46	14	10	28	1.77
1816948--1817283	149	2.3	150	96	1	613	47	13	11	27	1.78
1817492--1817627	33	3.9	34	81	4	121	35	11	19	33	1.88
1817492--1817623	69	1.9	67	83	3	165	34	12	18	34	1.88
1817525--1817642	33	3.4	33	82	6	128	35	11	19	33	1.88
1817595--1817822	101	2.3	99	82	10	250	36	12	19	30	1.89
1817945--1818043	36	2.8	36	96	0	180	37	11	16	35	1.84
1818399--1818458	4	15.0	4	85	0	84	28	3	21	46	1.67
1819635--1819757	12	10.5	11	72	11	77	3	14	10	71	1.25
1819649--1819697	11	4.4	11	84	2	62	6	10	12	71	1.30
1819649--1819758	23	4.7	22	72	15	96	3	14	10	70	1.28
1819640--1819758	34	3.4	34	70	18	84	3	15	10	70	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1819695--1819733	21	2.0	21	90	10	64	0	20	7	71	1.10
1826471--1826567	25	3.9	25	92	6	162	25	15	20	38	1.92
1826683--1826728	3	15.3	3	90	0	74	65	2	2	30	1.16
1828180--1828208	4	7.2	4	100	0	58	24	0	0	75	0.80
1832158--1832189	17	1.9	16	93	6	55	62	9	0	28	1.26
1837430--1837466	16	2.3	16	100	0	74	32	16	13	37	1.87
1840303--1840634	124	2.7	124	88	0	477	27	23	10	37	1.88
1840440--1840555	45	2.6	45	88	2	162	27	26	10	35	1.89
1840517--1840660	34	3.9	34	69	18	108	27	22	11	38	1.88
1840477--1840789	79	4.0	80	82	7	378	27	23	11	36	1.90
1842952--1842999	23	2.1	23	96	0	87	25	37	14	22	1.92
1842959--1843007	23	2.2	23	85	3	64	28	34	12	24	1.91
1844453--1844528	21	3.8	19	77	14	73	23	3	0	72	1.01
1844465--1844528	25	3.0	21	84	13	69	21	4	0	73	1.01
1844492--1844704	17	12.3	17	69	21	97	29	2	1	66	1.14
1844522--1844580	2	30.5	2	85	13	79	44	3	0	52	1.17
1844550--1844638	39	2.3	38	80	9	90	34	3	2	59	1.26
1844571--1844659	39	2.4	38	84	5	110	25	3	3	67	1.22
1844645--1844704	31	1.9	31	90	6	95	23	1	0	75	0.90
1844643--1844704	8	7.4	8	71	10	52	22	1	0	75	0.88
1844658--1844708	16	3.2	17	78	21	65	23	3	0	72	1.01
1844805--1844849	18	2.6	17	83	13	56	15	13	0	71	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844803--1844849	17	2.7	17	81	12	60	14	12	0	72	1.13
1848033--1848096	26	2.4	25	80	14	67	76	4	12	6	1.13
1849678--1849796	36	3.3	36	82	4	150	29	20	12	37	1.89
1849766--1849937	67	2.6	67	84	5	197	31	20	8	38	1.84
1850647--1850902	110	2.4	106	85	3	325	33	22	20	23	1.97
1852432--1852492	18	3.5	18	78	8	56	21	3	0	75	0.94
1852593--1852637	18	2.6	17	86	13	65	17	13	0	68	1.20
1852700--1852763	26	2.5	26	77	10	69	15	6	6	71	1.26
1856031--1856302	45	7.1	34	70	25	177	28	24	10	36	1.89
1855964--1856302	79	4.3	79	92	0	518	27	23	10	38	1.88

Tables:   1   2   3   4   5   6   7   8   9