genome.fa.s1111.2.7.7.80.10.50.1000.8.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: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3891333

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

This is table  8  of  17  ( 1987 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)
1749749--1749792	21	2.1	21	82	0	52	31	15	43	9	1.79
1751227--1751278	20	2.6	20	93	0	95	23	28	23	25	1.99
1751454--1751508	23	2.4	23	100	0	110	45	12	3	38	1.60
1753738--1753762	13	1.9	13	100	0	50	40	8	8	44	1.63
1763683--1763790	40	2.7	40	88	1	155	33	25	14	25	1.95
1767006--1767056	25	2.0	25	84	0	66	35	5	5	52	1.50
1767361--1767386	2	13.0	2	100	0	52	50	0	0	50	1.00
1770165--1770288	47	2.8	45	85	8	164	39	8	20	30	1.83
1770551--1770618	32	2.2	31	91	2	109	36	4	8	50	1.54
1772705--1772759	20	2.7	20	80	11	58	54	5	20	20	1.63
1774715--1774785	35	2.0	36	88	2	108	36	14	14	35	1.86
1775854--1775898	22	2.0	22	86	4	63	44	6	6	42	1.57
1780926--1781043	20	5.9	20	80	6	96	30	21	19	28	1.97
1781645--1781751	20	5.4	20	85	3	110	15	16	21	45	1.85
1783459--1783509	18	2.8	18	100	0	102	33	19	5	41	1.76
1783678--1783717	20	2.0	20	95	0	71	15	22	22	40	1.91
1783677--1783728	20	2.8	18	83	11	68	15	21	25	38	1.92
1784213--1784323	42	2.6	42	75	10	111	22	35	17	25	1.95
1785710--1785771	14	4.3	14	77	6	61	38	0	14	46	1.45
1785885--1785923	20	2.0	20	94	0	69	48	17	20	12	1.80
1785966--1786230	20	13.9	20	78	10	277	26	18	22	32	1.97
1785926--1786148	94	2.4	94	93	0	365	25	20	21	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1785902--1786230	114	2.9	113	76	5	331	27	19	21	32	1.97
1786205--1786470	140	1.9	140	98	0	514	42	15	13	28	1.85
1786530--1786564	18	1.9	18	94	0	61	17	2	25	54	1.57
1788824--1788870	24	2.0	24	95	0	85	34	17	21	27	1.95
1789683--1789729	20	2.3	20	96	0	85	25	23	29	21	1.99
1793325--1793383	31	1.9	31	92	0	100	37	10	8	44	1.69
1793328--1793394	31	2.2	31	86	5	91	35	10	10	43	1.73
1808837--1808867	3	10.3	3	100	0	62	67	32	0	0	0.91
1808866--1808890	3	8.3	3	100	0	50	68	0	0	32	0.90
1808903--1808988	43	2.0	43	88	0	127	53	11	10	24	1.68
1809612--1809661	24	2.1	24	88	3	75	54	4	0	42	1.19
1809674--1809707	16	2.1	16	89	10	52	64	0	0	35	0.94
1809691--1809744	28	1.9	28	82	14	67	46	1	1	50	1.23
1810463--1810495	16	2.1	16	94	0	57	45	0	0	54	0.99
1831319--1831364	19	2.3	20	82	14	60	36	4	8	50	1.53
1833041--1833088	21	2.3	21	81	0	69	41	12	16	29	1.85
1833137--1833170	18	1.9	18	88	5	52	47	11	20	20	1.81
1833519--1834385	54	16.1	54	86	1	1173	36	19	16	27	1.93
1834124--1834263	27	5.2	27	63	16	74	37	18	17	25	1.93
1844960--1845357	59	6.8	59	90	1	593	32	19	12	35	1.89
1845688--1845742	22	2.7	20	75	10	65	25	29	14	30	1.95
1845688--1845910	95	2.3	95	86	1	295	26	26	16	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1845878--1845928	20	2.5	20	82	14	61	27	29	11	31	1.92
1845914--1845957	21	2.1	21	86	0	61	34	18	15	31	1.92
1850361--1850405	21	2.2	21	96	4	83	35	8	11	44	1.71
1855752--1855865	47	2.4	47	77	0	138	22	20	13	43	1.86
1855776--1855853	27	3.2	25	67	24	58	24	16	12	46	1.82
1855840--1855939	20	4.7	20	78	17	112	19	27	12	42	1.86
1855860--1856289	47	9.0	47	89	2	601	20	20	13	45	1.84
1856197--1856275	20	3.6	20	71	21	68	22	25	8	43	1.82
1856694--1856872	95	1.9	94	84	10	240	25	23	13	37	1.92
1858161--1858185	12	2.1	12	100	0	50	60	0	16	24	1.36
1865778--1866428	257	2.5	260	82	6	773	37	11	13	36	1.82
1866897--1867046	44	3.5	43	79	7	139	34	21	16	28	1.95
1867096--1867289	37	5.4	36	83	6	232	27	13	9	49	1.72
1867131--1867193	20	3.3	20	64	20	53	22	12	11	53	1.69
1867092--1867289	71	2.7	71	81	8	231	28	13	9	48	1.73
1867135--1867330	107	1.8	108	80	3	234	30	14	9	45	1.76
1869506--1869544	3	12.7	3	94	5	69	30	0	2	66	1.05
1873735--1873771	15	2.3	16	90	9	58	29	5	2	62	1.31
1881047--1881080	16	2.0	18	88	11	54	23	17	0	58	1.38
1884084--1884108	12	2.1	12	100	0	50	24	24	8	44	1.80
1884549--1884599	19	2.5	21	84	9	70	80	0	13	5	0.89
1884562--1884595	14	2.5	14	90	4	52	76	0	17	5	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1885656--1885754	40	2.4	41	81	6	103	23	31	19	26	1.98
1886123--1886150	3	9.3	3	100	0	56	32	0	0	67	0.91
1901111--1901171	31	2.0	31	83	6	79	59	6	3	31	1.39
1901435--1901487	6	8.8	6	95	0	97	35	0	64	0	0.94
1901435--1901501	12	5.6	12	94	0	89	35	0	62	1	1.04
1901435--1901501	18	3.6	18	90	6	89	35	0	62	1	1.04
1902445--1902489	16	2.8	16	86	3	54	42	2	51	4	1.34
1908551--1908624	29	2.5	29	78	12	78	36	13	1	48	1.51
1909042--1909070	3	9.7	3	100	0	58	65	0	0	34	0.93
1909542--1909579	2	19.5	2	94	5	69	50	0	50	0	1.00
1909965--1910003	6	6.5	6	96	0	69	0	0	48	51	1.00
1915514--1915572	28	2.1	28	87	6	84	57	8	10	23	1.59
1916565--1916632	31	2.2	31	78	5	75	27	14	11	45	1.80
1916798--1916868	30	2.3	32	79	16	87	18	11	14	56	1.67
1917769--1917801	16	2.1	16	88	5	50	42	6	0	51	1.26
1919097--1919175	35	2.2	36	86	2	106	32	11	36	18	1.87
1919237--1919268	2	16.5	2	93	6	57	50	0	0	50	1.00
1919256--1919322	35	1.9	35	90	0	107	52	0	0	47	1.00
1920060--1920191	39	3.3	40	78	11	146	45	4	8	41	1.54
1920171--1920198	2	14.0	2	100	0	56	50	0	0	50	1.00
1920139--1920319	45	4.2	44	86	8	230	45	2	5	46	1.38
1920060--1920411	40	8.9	39	72	21	186	44	2	7	45	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1920274--1920402	35	3.8	32	73	21	102	44	1	7	45	1.41
1920296--1920345	26	1.9	26	83	0	64	44	4	8	44	1.52
1920274--1920419	71	2.1	67	83	10	186	43	1	8	45	1.43
1920235--1920438	109	1.9	109	84	9	274	43	0	9	46	1.42
1920484--1920533	14	3.6	14	78	10	57	22	8	0	70	1.13
1921670--1921724	22	2.5	21	83	16	67	14	7	1	76	1.08
1921701--1921771	17	4.4	17	74	15	69	19	9	0	70	1.15
1921684--1921768	28	2.9	29	75	16	75	17	10	1	70	1.21
1921739--1921780	13	3.2	13	90	10	59	23	7	0	69	1.13
1921779--1921822	20	2.3	19	84	4	52	22	2	2	72	1.07
1926769--1926832	19	3.2	21	72	18	73	56	0	0	43	0.99
1926743--1926795	27	1.9	28	84	3	72	52	0	0	47	1.00
1926782--1926844	22	2.8	23	76	9	60	57	0	0	42	0.99
1932418--1932537	64	1.9	63	85	1	168	35	20	17	26	1.95
1932418--1932579	63	2.5	64	78	10	172	33	20	18	27	1.96
1934901--1934943	21	2.0	21	86	4	59	55	0	0	44	0.99
1939956--1939994	20	2.1	19	90	9	62	35	15	25	23	1.94
1940743--1940879	21	6.4	21	78	3	157	24	13	24	37	1.92
1940782--1940891	21	5.1	22	73	11	84	27	13	23	35	1.93
1940756--1940889	42	3.1	42	84	3	187	26	14	24	34	1.94
1942748--1942786	18	2.1	18	85	9	51	58	5	33	2	1.33
1943659--1943696	16	2.4	16	86	8	51	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1945302--1945345	21	2.1	21	95	0	79	31	22	18	27	1.97
1945310--1945356	21	2.2	21	85	7	60	38	27	10	23	1.88
1950160--1950203	21	2.1	21	95	0	79	31	22	18	27	1.97
1950195--1950221	13	2.1	13	100	0	54	40	29	7	22	1.81
1950993--1951133	36	4.0	36	94	3	243	46	18	5	29	1.72
1950993--1951133	71	2.0	70	93	4	239	46	18	5	29	1.72
1951154--1951219	29	2.3	29	94	2	116	28	22	9	39	1.85
1955665--1955764	21	5.4	20	64	28	60	46	19	5	30	1.71
1955656--1955770	35	3.3	35	91	3	178	45	19	5	30	1.72
1958818--1958882	21	3.0	21	75	8	60	44	0	0	55	0.99

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