genome.fa.s8194.2.7.7.80.10.50.1000.10.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: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2426039

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  10  of  13  ( 1464 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)
1893439--1893472	17	1.9	18	88	5	52	61	0	11	26	1.30
1894516--1894611	3	32.3	3	97	2	185	65	0	0	34	0.93
1894969--1895004	18	2.0	18	100	0	72	33	33	11	22	1.89
1898235--1898349	29	3.9	29	88	6	178	33	2	17	46	1.62
1898238--1898363	29	4.3	29	83	6	155	34	2	16	46	1.60
1905233--1905263	16	1.9	16	93	0	53	48	0	9	41	1.36
1911753--1911806	28	2.0	28	85	10	76	31	12	14	40	1.84
1912755--1912795	15	2.6	16	79	20	50	53	0	2	43	1.13
1912868--1912901	16	2.1	17	88	5	52	61	2	0	35	1.11
1915528--1915577	14	3.8	14	70	24	54	30	6	10	54	1.58
1915517--1915573	24	2.4	25	94	5	100	31	3	12	52	1.55
1915706--1915780	2	37.5	2	100	0	150	49	0	0	50	1.00
1917635--1917683	4	12.2	4	100	0	98	24	0	0	75	0.80
1921730--1921788	27	2.2	27	84	0	73	57	1	1	38	1.19
1925820--1925845	6	4.3	6	100	0	52	84	0	0	15	0.62
1927948--1928002	19	2.8	19	94	2	92	36	0	5	58	1.21
1928679--1928753	10	7.7	10	71	21	61	56	21	12	10	1.66
1928683--1928747	16	4.1	16	91	0	112	56	21	12	9	1.63
1929734--1929808	24	3.1	24	90	0	105	56	20	12	12	1.67
1929754--1929809	14	4.3	14	82	17	66	51	23	14	10	1.73
1929747--1929794	10	4.4	10	78	19	51	54	20	12	12	1.70
1930767--1930810	23	2.0	22	90	4	70	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1932811--1932935	61	2.0	61	84	3	162	19	22	35	23	1.96
1933180--1933226	25	1.9	24	86	4	67	36	0	6	57	1.24
1933185--1933261	40	2.0	38	85	10	102	41	0	5	53	1.23
1933225--1933271	25	2.0	22	84	12	58	44	0	2	53	1.12
1933234--1933279	23	2.0	22	83	4	56	47	0	2	50	1.13
1934185--1934230	12	3.8	12	86	11	51	26	17	15	41	1.88
1934794--1934887	46	2.0	46	80	8	102	43	10	5	40	1.62
1935066--1935106	21	2.0	21	90	0	64	53	2	0	43	1.13
1935227--1935927	137	5.1	137	86	2	878	34	20	18	25	1.96
1935225--1935927	276	2.6	273	84	3	909	34	21	18	25	1.96
1936839--1936902	23	2.8	23	90	0	101	26	28	26	18	1.98
1936918--1937135	103	2.1	103	96	0	400	37	23	13	25	1.92
1956738--1956776	20	2.0	20	84	0	51	23	7	23	46	1.78
1956946--1957008	20	2.9	21	79	9	65	15	25	34	23	1.95
1963789--1963847	25	2.6	24	79	15	63	13	8	1	76	1.09
1965006--1965045	14	2.9	14	88	3	55	90	2	7	0	0.55
1965006--1965045	16	2.5	15	84	11	53	90	2	7	0	0.55
1974191--1974216	3	8.7	3	100	0	52	30	0	0	69	0.89
1974523--1974566	21	2.1	21	95	0	79	38	0	0	61	0.96
1974928--1974991	32	2.0	32	84	0	83	20	17	6	56	1.62
1984294--1984343	17	3.0	17	82	11	50	62	0	2	36	1.07
1986092--1986153	23	2.5	25	80	14	74	32	22	0	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1986536--1986578	16	2.7	16	96	0	77	44	9	13	32	1.76
1999038--1999178	72	2.0	72	83	8	180	29	17	19	32	1.95
2001969--2002036	23	2.9	23	84	2	82	30	20	10	38	1.86
2003916--2003976	23	2.6	24	84	5	81	50	40	3	4	1.40
2008940--2008969	15	1.9	16	93	6	53	10	0	46	43	1.37
2009041--2009092	20	2.5	22	79	17	67	65	0	0	34	0.93
2009084--2009117	2	17.5	2	93	6	61	50	0	0	50	1.00
2013291--2013511	110	2.0	111	99	0	435	42	17	26	13	1.86
2017187--2017256	34	2.1	34	86	5	99	22	24	15	37	1.93
2017974--2018242	133	2.0	133	94	5	472	46	10	10	32	1.72
2020939--2021012	20	3.7	19	83	7	85	31	20	25	22	1.98
2020939--2021021	20	4.3	19	82	10	80	31	19	25	24	1.98
2021032--2021088	22	2.8	19	78	17	69	21	21	33	24	1.97
2026691--2027092	157	2.5	158	84	6	535	35	15	22	27	1.94
2027025--2027088	17	3.3	19	67	20	51	39	10	25	25	1.88
2026691--2027168	157	3.0	155	77	9	459	34	16	21	26	1.95
2027535--2027580	22	2.0	23	83	12	58	47	2	0	50	1.13
2027587--2027642	23	2.3	23	81	6	67	35	44	12	7	1.70
2028639--2028668	16	1.9	16	93	6	53	26	3	0	70	1.03
2036980--2037012	16	2.1	16	94	0	57	45	21	0	33	1.52
2037813--2037844	14	2.3	14	100	0	64	31	15	12	40	1.85
2038322--2038370	21	2.3	20	80	10	53	59	12	6	22	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2039266--2039307	23	1.9	22	85	9	59	38	19	9	33	1.84
2042020--2042171	59	2.5	60	79	10	143	32	18	4	44	1.70
2042327--2042517	60	3.2	60	78	11	194	37	5	24	32	1.78
2043424--2043470	22	2.2	22	85	7	62	61	6	2	29	1.32
2045430--2045481	26	2.0	26	85	7	70	25	25	30	19	1.98
2045463--2045568	36	2.9	37	87	2	144	32	22	22	22	1.98
2046557--2046598	22	1.9	22	85	0	57	42	16	14	26	1.86
2055119--2055150	2	16.0	2	100	0	64	50	0	0	50	1.00
2055167--2055200	16	2.2	16	89	5	52	50	2	0	47	1.16
2057164--2057228	2	32.5	2	100	0	130	49	0	0	50	1.00
2059202--2059227	2	13.0	2	100	0	52	50	0	0	50	1.00
2062962--2063005	21	2.2	20	87	4	61	31	27	25	15	1.96
2063335--2063382	24	2.0	24	84	8	62	37	6	16	39	1.74
2063834--2063929	32	3.0	32	76	14	117	29	16	18	35	1.93
2063835--2063932	31	3.2	30	77	11	108	29	18	18	33	1.95
2063921--2064043	30	4.1	30	93	1	203	21	21	26	31	1.98
2064316--2064377	2	31.0	2	93	0	106	46	1	1	50	1.20
2067900--2067944	21	2.1	21	87	0	63	31	28	24	15	1.96
2068275--2068322	24	2.0	24	84	8	62	37	6	16	39	1.74
2068775--2068870	32	3.0	32	79	14	126	29	17	18	34	1.94
2068862--2068984	30	4.1	30	95	1	212	21	21	26	30	1.98
2071863--2072277	137	3.0	135	82	7	466	43	12	13	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2072611--2072665	29	2.0	28	85	7	76	60	1	9	29	1.38
2088281--2088357	36	2.1	36	97	0	145	44	20	20	14	1.86
2088236--2088411	90	2.0	90	86	0	244	43	21	21	14	1.87
2088471--2088627	54	2.9	54	93	0	260	45	23	20	10	1.81
2088464--2089026	60	10.0	54	77	11	361	44	21	19	14	1.86
2088471--2088751	108	2.6	107	79	10	270	43	22	20	13	1.87
2088763--2089102	57	5.9	57	81	8	323	45	21	17	15	1.85
2088703--2089083	117	3.3	117	86	6	433	46	20	17	15	1.84
2092974--2093291	161	2.0	160	94	0	564	30	18	20	30	1.96
2095116--2095159	2	22.0	2	100	0	88	50	0	0	50	1.00
2095169--2095375	107	1.9	106	81	5	247	42	7	9	39	1.66
2096715--2096777	16	3.8	17	77	12	69	53	0	0	46	1.00
2096911--2097391	227	2.1	224	94	2	840	34	22	20	23	1.97
2096906--2097391	151	3.2	151	94	2	847	34	22	20	23	1.97
2096906--2097391	76	6.5	76	94	3	849	34	22	20	23	1.97
2097332--2097699	184	2.0	183	95	1	657	39	14	14	31	1.86
2098249--2098303	22	2.5	22	90	0	92	38	16	10	34	1.84
2103055--2103108	16	3.3	16	82	5	72	3	14	0	81	0.82
2103049--2103101	25	2.1	26	89	3	81	1	16	0	81	0.79
2103093--2103145	26	2.0	26	96	0	97	5	15	11	67	1.38
2103059--2103112	7	7.4	7	78	15	56	3	14	0	81	0.82
2108878--2108924	2	23.5	2	100	0	94	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2109196--2109244	15	3.2	16	73	23	52	65	0	4	30	1.11
2110393--2110443	3	16.3	3	80	8	57	58	0	0	41	0.98
2110378--2110441	19	3.5	20	76	24	77	56	0	0	43	0.99
2110378--2110443	31	2.1	31	83	10	82	56	0	0	43	0.99
2110396--2110445	16	3.1	16	81	16	59	58	0	0	42	0.98
2110406--2110451	22	2.1	22	88	8	67	52	0	0	47	1.00
2114419--2114525	51	2.1	51	94	0	187	30	2	5	60	1.34
2116213--2116259	14	3.4	14	90	0	76	25	40	27	6	1.80
2116241--2116325	33	2.6	33	88	3	118	25	27	38	8	1.84
2116329--2116413	29	2.9	29	96	0	152	18	30	37	12	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13