genome.fa.s422.2.7.7.80.10.50.1000.10.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: 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  10  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)
1914676--1914706	16	1.9	16	93	0	53	29	29	6	35	1.82
1915576--1915640	21	3.2	21	64	24	57	55	20	12	12	1.68
1915576--1915655	40	2.0	40	97	0	151	53	22	11	12	1.70
1916943--1916991	18	2.7	18	81	9	64	40	20	10	28	1.85
1917254--1917319	25	2.8	24	80	8	66	57	19	7	15	1.61
1919204--1919309	48	2.3	46	85	3	140	33	26	12	28	1.92
1920350--1920389	21	1.9	21	84	0	53	42	30	0	27	1.56
1920787--1920844	28	2.1	28	100	0	116	50	13	6	29	1.68
1920787--1920853	28	2.4	28	92	5	100	53	13	5	26	1.62
1922002--1922031	3	10.0	3	100	0	60	0	33	0	66	0.92
1922373--1922418	24	1.9	24	86	0	65	58	17	13	10	1.62
1922649--1922700	14	3.7	14	87	5	70	63	17	7	11	1.50
1922639--1922696	24	2.4	24	91	0	89	63	17	6	12	1.49
1923229--1923307	40	2.0	40	85	9	108	75	0	7	16	1.01
1923240--1923355	13	8.9	12	67	21	56	73	0	8	18	1.08
1923226--1923395	70	2.4	69	78	13	159	72	1	8	17	1.15
1923279--1923391	26	4.2	26	70	21	54	72	1	8	16	1.18
1923273--1923343	25	2.9	24	78	21	69	71	0	12	15	1.14
1923240--1923498	9	28.3	9	65	21	69	71	1	6	19	1.16
1923240--1923498	12	21.6	11	66	22	73	71	1	6	19	1.16
1923446--1923498	23	2.3	23	83	3	63	75	1	1	20	0.99
1923473--1923519	9	5.0	9	80	14	51	72	0	6	21	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1923444--1923570	11	10.4	11	69	19	56	75	1	5	17	1.07
1923575--1923705	2	70.5	2	73	17	68	58	0	3	38	1.14
1923587--1923664	38	2.0	40	85	5	106	60	0	5	34	1.19
1923616--1923705	23	3.7	23	79	7	63	58	0	2	38	1.10
1925476--1926802	85	15.8	85	81	5	1394	25	18	21	34	1.96
1925552--1926801	171	7.4	165	82	6	1226	25	18	21	34	1.96
1925558--1926801	504	2.5	505	82	6	1484	25	18	21	34	1.96
1927617--1927643	14	1.9	14	100	0	54	37	14	7	40	1.74
1927986--1928164	94	2.0	90	89	7	272	29	18	18	33	1.95
1929652--1929732	39	2.1	39	97	0	153	55	4	18	20	1.61
1930977--1931053	38	2.1	36	88	9	111	55	5	18	20	1.61
1932047--1932096	25	2.0	24	85	11	66	74	0	6	20	1.03
1932116--1932194	10	7.7	10	70	24	58	72	1	11	15	1.19
1932234--1932258	2	12.5	2	100	0	50	52	0	0	48	1.00
1932418--1932450	2	17.0	2	93	6	59	48	0	0	51	1.00
1932415--1932460	19	2.5	19	86	13	69	50	0	2	47	1.13
1932430--1932555	51	2.4	53	85	11	179	58	0	3	36	1.22
1935510--1935885	176	2.1	178	86	9	529	42	2	7	46	1.48
1938392--1938435	3	14.0	3	86	13	54	65	0	2	31	1.05
1938392--1938435	10	4.7	9	84	15	54	65	0	2	31	1.05
1938392--1938438	16	3.1	15	84	12	60	65	0	2	31	1.04
1938392--1938436	19	2.3	20	88	7	67	66	0	2	31	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1938976--1939220	84	2.9	84	80	6	217	22	20	24	32	1.98
1939015--1939220	84	2.5	84	82	3	218	21	21	26	30	1.98
1939219--1939324	36	2.9	35	92	2	167	36	14	22	26	1.92
1939449--1940124	106	6.6	106	91	4	999	23	18	24	33	1.96
1939628--1939877	43	5.4	43	69	14	176	22	18	24	34	1.96
1939592--1940094	94	5.1	94	89	8	727	23	18	24	33	1.96
1945323--1945384	3	19.3	3	85	12	63	62	0	1	35	1.05
1945510--1945967	42	10.9	42	94	0	817	20	19	24	35	1.95
1946844--1947010	21	7.9	20	74	16	117	35	22	19	21	1.96
1946847--1946964	42	2.8	42	96	0	209	36	24	18	20	1.95
1946850--1946995	42	3.4	41	88	5	168	36	22	19	21	1.95
1951515--1951547	17	1.9	17	88	11	50	63	0	3	33	1.10
1962041--1962095	25	2.3	24	93	6	94	52	5	7	34	1.52
1967198--1967245	25	2.0	23	84	8	60	6	14	39	39	1.71
1969633--1969670	16	2.3	16	95	4	67	26	7	28	36	1.84
1978037--1978080	17	2.6	17	96	0	79	18	45	25	11	1.82
1981913--1981951	13	3.0	13	92	7	62	71	0	23	5	1.05
1981916--1982004	13	8.2	10	74	24	58	76	0	12	11	1.02
1981930--1982000	22	3.3	20	79	13	79	78	0	8	12	0.95
1981951--1982002	11	4.7	11	80	15	54	80	0	3	15	0.85
1982999--1983540	55	9.9	55	88	3	738	31	16	23	28	1.96
1982999--1983540	111	4.9	111	87	3	742	31	16	23	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1984880--1984927	25	2.0	23	84	8	60	6	14	39	39	1.71
1993125--1993191	5	13.4	5	78	12	75	5	19	53	20	1.66
1993116--1993160	22	2.0	22	95	0	81	11	22	48	17	1.78
1993144--1993188	14	3.2	14	96	0	81	4	17	57	20	1.56
1993188--1993252	10	6.9	9	84	10	76	32	30	24	12	1.92
1993128--1993200	17	4.2	18	75	19	75	8	20	52	19	1.71
1993188--1993252	19	3.4	19	84	0	85	32	30	24	12	1.92
1993206--1993251	9	4.9	9	86	7	56	36	28	21	13	1.91
1996012--1996038	14	1.9	14	100	0	54	40	14	7	37	1.74
1996167--1996207	16	2.6	16	96	3	75	56	0	12	31	1.36
1998123--1998191	32	2.2	32	89	0	102	18	26	31	23	1.97
1998135--1998191	15	3.7	15	75	9	60	17	26	33	22	1.96
2007346--2007385	21	1.9	22	85	10	57	40	7	17	35	1.78
2010343--2010382	21	1.9	21	89	0	62	30	0	25	45	1.54
2010570--2010666	2	48.5	2	100	0	194	49	0	0	50	1.00
2013833--2013872	21	1.9	21	89	0	62	27	20	25	27	1.99
2013907--2013967	21	3.0	21	80	4	70	37	19	22	19	1.94
2015510--2015768	130	2.0	130	98	0	500	23	28	19	28	1.98
2023064--2023116	27	1.9	28	84	3	72	64	0	5	30	1.17
2028663--2029167	254	2.0	250	98	1	974	28	25	16	28	1.97
2033781--2033859	40	2.0	40	87	0	113	17	27	34	20	1.95
2034288--2034312	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2036202--2036254	16	3.3	16	86	0	79	18	13	22	45	1.84
2036253--2036289	16	2.3	16	95	0	65	8	10	32	48	1.67
2038372--2038470	49	2.0	49	100	0	198	31	10	12	46	1.74
2042254--2042295	19	2.2	19	83	8	50	52	4	0	42	1.22
2043887--2044014	32	4.0	32	75	0	103	28	19	14	37	1.91
2046513--2046699	93	2.0	94	98	1	367	28	24	17	29	1.97
2048994--2049119	32	3.9	32	86	0	144	29	12	13	44	1.81
2050629--2051036	205	2.0	205	87	0	584	28	12	25	33	1.93
2055468--2055508	3	13.7	3	94	0	73	63	0	2	34	1.08
2057828--2057854	12	2.2	12	100	0	54	18	14	25	40	1.89
2057838--2058284	41	10.9	41	88	0	617	27	19	18	34	1.95
2060824--2060898	36	2.1	35	95	2	132	21	5	16	57	1.58
2060824--2060911	36	2.5	36	88	5	117	20	6	17	55	1.64
2062820--2063145	43	7.6	42	83	4	377	25	22	20	32	1.98
2062820--2063125	85	3.6	86	84	4	408	24	21	20	32	1.98
2062834--2063125	127	2.3	126	84	2	361	25	21	20	32	1.98
2066963--2067033	23	3.1	23	83	0	97	12	22	18	46	1.82
2073867--2073936	32	2.2	33	97	2	133	32	21	12	32	1.91
2075722--2075776	21	2.6	21	85	0	83	50	1	3	43	1.30
2082764--2082816	23	2.3	22	84	9	70	43	7	20	28	1.79
2094196--2094231	16	2.2	17	90	5	56	44	22	0	33	1.53
2096241--2096330	21	4.4	21	79	8	98	21	41	14	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2096241--2096315	39	1.9	39	86	5	107	20	40	16	24	1.91
2096615--2096640	2	13.0	2	100	0	52	50	0	0	50	1.00
2099016--2099100	23	3.7	23	87	0	116	38	5	18	36	1.75
2099128--2099177	23	2.2	23	85	0	64	42	10	12	36	1.76
2099144--2099206	23	2.8	22	83	7	74	46	7	11	34	1.69
2099237--2099286	23	2.2	23	88	0	73	36	12	18	34	1.87
2099237--2099293	23	2.5	23	82	0	60	40	10	15	33	1.82
2099027--2099287	109	2.4	110	88	0	389	40	9	15	34	1.81
2099536--2099585	22	2.2	24	82	7	59	54	2	4	40	1.31
2099586--2099630	14	3.1	14	81	15	56	42	0	2	55	1.12

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