genome.fa.s422.2.7.7.80.10.50.1000.9.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: VEPZ01000422.1 Hibiscus syriacus cultivar Beakdansim tig00000773_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457469

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

This is table  9  of  12  ( 1325 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)
1661409--1661459	20	2.7	19	85	8	61	25	21	19	33	1.97
1662249--1662307	2	29.5	2	100	0	118	49	0	0	50	1.00
1665984--1666027	21	2.2	20	84	12	54	47	4	0	47	1.22
1667367--1667417	23	2.2	23	82	0	66	39	9	19	31	1.84
1667516--1667565	23	2.2	23	82	7	57	38	12	16	34	1.85
1667345--1667709	158	2.3	158	95	0	649	40	13	13	31	1.84
1669568--1670701	196	5.8	199	86	6	1562	30	15	14	39	1.87
1669568--1670702	393	2.9	392	87	5	1600	30	15	14	39	1.87
1672552--1672618	31	2.2	31	91	0	107	56	29	0	13	1.37
1673635--1673668	6	5.7	6	89	0	50	20	32	2	44	1.67
1675148--1675900	199	3.8	200	86	4	1054	33	13	13	39	1.85
1678513--1678547	18	1.9	18	94	0	61	48	14	2	34	1.58
1680081--1680120	18	2.2	18	100	0	80	5	40	0	55	1.22
1680228--1680356	66	1.9	66	84	1	168	24	41	2	31	1.67
1682814--1683281	180	2.6	178	87	4	636	26	17	14	42	1.87
1683542--1683571	6	5.0	6	100	0	60	33	16	0	50	1.46
1689929--1689957	4	7.2	4	100	0	58	0	24	0	75	0.80
1690294--1690334	2	20.5	2	100	0	82	51	0	0	48	1.00
1696074--1696146	32	2.3	32	100	0	146	45	9	8	36	1.67
1698021--1698110	44	2.0	44	93	0	153	16	14	18	50	1.79
1699859--1699926	27	2.5	27	95	0	118	25	20	22	32	1.98
1701298--1701626	132	2.4	135	82	7	366	42	12	14	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1703700--1703745	20	2.3	21	78	14	53	56	8	2	32	1.42
1706384--1706455	18	3.8	18	76	16	67	33	2	1	62	1.18
1706400--1706462	21	3.0	20	79	11	72	34	1	3	60	1.22
1706917--1706946	14	2.1	15	93	6	53	30	0	0	70	0.88
1710428--1710457	2	15.0	2	100	0	60	50	0	0	50	1.00
1718093--1718471	191	2.0	187	97	2	713	36	22	9	31	1.86
1719992--1720034	6	7.2	6	89	0	50	9	0	55	34	1.32
1720163--1720223	28	2.2	28	82	5	70	26	9	4	59	1.50
1722861--1722926	20	3.4	18	78	17	71	21	12	1	65	1.34
1722747--1723145	158	2.6	157	84	6	517	29	17	5	48	1.68
1722747--1723204	158	2.9	156	80	10	501	28	17	4	49	1.66
1733759--1733785	1	27.0	1	100	0	54	0	0	0	100	0.00
1738169--1738197	12	2.4	12	100	0	58	37	24	20	17	1.93
1738925--1738986	21	3.0	20	74	6	61	35	8	24	32	1.85
1740535--1740603	30	2.3	30	85	11	90	43	4	18	33	1.70
1740828--1740884	25	2.3	26	79	14	66	19	24	26	29	1.98
1741501--1741543	22	2.0	22	90	0	68	18	18	18	44	1.87
1741501--1741543	12	3.8	12	81	12	54	18	18	18	44	1.87
1744195--1744249	26	2.1	27	86	6	78	34	0	3	61	1.13
1745389--1745481	46	2.0	45	87	8	134	34	7	4	53	1.49
1746947--1746972	2	13.0	2	100	0	52	50	0	0	50	1.00
1747782--1747834	8	7.1	8	81	16	53	18	1	0	79	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747783--1747832	18	2.7	19	78	9	59	16	2	0	82	0.77
1755588--1755623	2	18.0	2	100	0	72	50	0	0	50	1.00
1756272--1756609	168	2.0	169	95	4	612	33	26	11	27	1.92
1763477--1763506	5	6.0	5	92	0	51	43	0	0	56	0.99
1767701--1767756	3	18.7	3	100	0	112	32	0	0	67	0.91
1769321--1769372	17	3.0	17	78	13	61	63	1	0	34	1.06
1769327--1769376	26	2.0	26	88	11	77	68	2	0	30	1.01
1769321--1769375	10	6.2	9	76	19	53	63	1	0	34	1.05
1769419--1769472	24	2.2	26	83	12	69	59	1	1	37	1.19
1769404--1769482	42	1.9	41	82	7	97	58	2	2	36	1.25
1769815--1769880	30	2.3	29	92	5	107	53	0	6	40	1.26
1769826--1769891	16	4.2	16	70	16	57	48	0	9	42	1.35
1769826--1769920	47	2.0	47	84	8	122	49	2	8	40	1.45
1769905--1769974	23	3.0	25	79	16	76	42	2	8	45	1.49
1769942--1770006	30	2.1	31	85	5	87	47	1	9	41	1.45
1774523--1774582	20	2.9	21	90	5	86	18	25	35	21	1.96
1786018--1786054	14	2.6	14	91	8	58	51	0	8	40	1.32
1786162--1786194	12	2.6	13	90	4	50	51	0	0	48	1.00
1790006--1790046	19	2.3	18	80	20	50	48	4	4	41	1.46
1793190--1793215	13	2.0	13	100	0	52	38	7	23	30	1.83
1793524--1793571	18	2.7	18	96	0	87	70	4	20	4	1.21
1795739--1795804	5	13.2	5	76	6	62	45	3	1	50	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1795765--1795803	15	2.6	15	95	0	69	46	2	0	51	1.14
1795739--1795804	20	3.3	20	79	6	71	45	3	1	50	1.26
1803204--1803238	17	2.1	17	89	10	54	31	20	17	31	1.95
1804124--1804193	30	2.4	29	83	11	81	45	1	0	52	1.09
1804124--1804193	31	2.4	31	83	11	85	45	1	0	52	1.09
1804180--1804250	31	2.1	35	85	12	96	47	4	0	47	1.21
1804405--1804456	23	2.3	23	82	0	59	51	1	0	46	1.12
1807070--1807144	23	3.3	23	75	7	80	49	13	12	25	1.76
1819143--1819179	16	2.2	17	86	13	51	64	8	5	21	1.40
1826776--1826819	18	2.4	19	96	3	81	72	0	4	22	1.02
1827960--1828027	36	1.9	36	84	3	93	47	4	2	45	1.38
1827960--1828056	47	2.1	47	90	1	151	45	6	3	45	1.44
1836421--1836455	15	2.2	15	90	10	52	80	0	8	11	0.92
1836607--1836649	18	2.4	18	92	7	70	69	0	9	20	1.15
1837751--1837787	18	2.2	16	90	9	56	72	0	5	21	1.04
1837759--1837789	14	2.3	13	94	5	53	74	0	3	22	0.96
1839523--1839592	34	2.1	34	84	5	90	22	28	15	32	1.95
1839960--1840023	21	3.0	21	93	0	110	25	18	34	21	1.96
1840104--1840163	30	2.0	30	96	0	111	45	20	5	30	1.72
1840274--1840313	21	1.9	21	89	0	62	52	5	10	32	1.56
1841453--1841500	19	2.5	20	82	3	62	29	12	6	52	1.63
1842795--1842891	21	4.7	21	90	1	151	28	16	32	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1843071--1843131	30	2.0	31	90	3	97	47	18	4	29	1.69
1847010--1847080	21	3.3	22	68	26	62	29	22	21	26	1.99
1847062--1847118	21	2.7	21	81	5	62	31	28	19	21	1.97
1853654--1853724	21	3.3	22	69	20	60	32	21	18	28	1.96
1853657--1853741	43	2.0	43	88	0	125	30	23	20	25	1.98
1853896--1853945	21	2.4	21	86	6	66	30	20	8	42	1.80
1857299--1857389	21	4.2	22	73	17	75	35	26	13	25	1.92
1857302--1857386	43	2.0	43	83	4	109	34	28	14	23	1.93
1857378--1857429	21	2.5	21	90	0	86	38	23	15	23	1.92
1857559--1857619	29	2.2	27	85	11	79	32	19	6	40	1.77
1884805--1884843	17	2.3	17	86	8	53	66	5	0	28	1.12
1888924--1888956	14	2.4	14	94	0	57	0	36	12	51	1.39
1890982--1891049	34	2.0	35	94	2	120	39	8	2	48	1.49
1894711--1894846	29	4.7	29	75	8	114	37	13	17	30	1.89
1894725--1894846	57	2.1	59	83	4	149	37	14	18	29	1.90
1894725--1894893	29	5.8	28	73	7	106	34	14	17	32	1.91
1900121--1900165	16	2.8	16	83	6	56	28	6	24	40	1.80
1900277--1900556	82	3.5	83	84	4	351	33	18	20	27	1.96
1901616--1901675	31	1.9	32	96	3	113	56	20	5	18	1.59
1904215--1904257	17	2.6	16	82	13	52	67	9	23	0	1.19
1904745--1904799	23	2.3	24	90	6	94	41	23	9	25	1.83
1906842--1906870	14	2.1	14	100	0	58	44	6	0	48	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1908303--1908372	21	3.3	21	74	4	68	28	21	24	25	1.99
1908303--1908359	22	2.7	21	75	5	69	26	22	24	26	2.00
1908303--1908404	43	2.3	44	86	1	134	28	20	21	29	1.98
1908559--1908629	21	3.3	21	71	7	61	28	21	23	26	1.99
1908574--1908645	23	3.2	22	72	18	60	27	19	23	29	1.98
1908559--1908661	44	2.3	44	88	0	143	28	20	21	30	1.98
1910587--1910615	14	2.0	15	93	6	51	20	0	27	51	1.47
1910636--1910672	2	18.5	2	100	0	74	48	0	0	51	1.00
1912127--1912194	27	2.5	27	78	0	73	17	35	5	41	1.74
1914161--1914191	14	2.2	14	94	0	53	61	6	0	32	1.21

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