genome.fa.s9461.2.7.7.80.10.50.1000.11.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: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2346588

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

This is table  11  of  12  ( 1395 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)
1915908--1915968	4	15.2	4	100	0	122	49	24	0	26	1.51
1920363--1920460	30	3.2	30	91	1	142	33	24	18	23	1.97
1920421--1920496	31	2.4	32	84	4	93	32	21	15	30	1.94
1920688--1920712	4	6.2	4	100	0	50	48	24	0	28	1.52
1921720--1921773	21	2.6	21	93	0	90	29	20	25	24	1.99
1928664--1928722	26	2.2	27	90	3	93	40	25	11	22	1.88
1931037--1931539	167	3.0	167	97	0	961	29	11	19	40	1.86
1932015--1932154	72	1.9	73	92	1	237	49	15	8	27	1.73
1932192--1932284	46	2.0	46	100	0	186	36	4	17	41	1.69
1932575--1932634	23	2.5	25	82	15	65	46	1	0	51	1.10
1932583--1932649	21	3.1	22	77	12	59	49	1	0	49	1.10
1932748--1932777	15	2.0	15	93	0	51	43	0	0	56	0.99
1932803--1932848	24	2.0	22	87	8	65	45	4	0	50	1.21
1937635--1937666	16	2.0	16	93	0	55	12	50	28	9	1.71
1937959--1938015	29	1.9	30	89	3	89	29	1	3	64	1.20
1939995--1940024	9	3.3	9	90	0	51	33	23	33	10	1.88
1940216--1940298	33	2.5	34	90	5	125	16	1	15	66	1.32
1940274--1940298	13	1.9	13	100	0	50	20	0	8	72	1.10
1940216--1940302	34	2.6	33	90	5	131	16	1	16	66	1.31
1943599--1943647	22	2.2	22	92	0	80	48	12	4	34	1.59
1945888--1945920	16	1.9	18	88	11	52	30	6	6	57	1.47
1947401--1947433	13	2.5	13	95	0	57	15	9	3	72	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1949803--1949853	22	2.3	22	89	0	84	21	37	17	23	1.94
1954889--1954946	23	2.5	23	100	0	116	34	10	18	36	1.85
1954807--1955143	110	3.1	110	94	0	568	43	11	13	32	1.80
1954999--1955056	23	2.5	23	94	0	98	34	10	18	36	1.85
1955022--1955332	87	3.6	87	93	0	523	44	11	11	32	1.76
1955267--1955316	23	2.2	23	88	0	73	38	12	16	34	1.85
1955279--1955326	23	2.1	23	88	0	69	37	10	16	35	1.83
1955570--1955621	24	2.2	24	80	16	65	55	5	0	38	1.24
1955630--1955674	14	3.1	14	81	15	56	42	0	2	55	1.12
1955657--1955732	28	2.6	30	80	12	79	48	2	1	47	1.24
1956739--1956795	21	2.8	20	84	5	87	14	10	10	64	1.49
1957132--1957192	24	2.5	24	100	0	122	49	3	3	44	1.35
1957232--1957321	28	3.3	28	72	7	78	50	1	1	47	1.15
1957261--1957329	30	2.3	31	82	9	81	49	0	1	49	1.09
1955570--1958856	799	4.2	779	90	5	5149	45	7	7	39	1.62
1957928--1957996	24	2.9	25	81	14	83	53	2	1	42	1.24
1958027--1958095	31	2.2	31	80	15	79	47	0	1	50	1.09
1958027--1958095	33	2.2	33	80	15	83	47	0	1	50	1.09
1958603--1958678	24	2.7	29	65	23	72	57	5	3	32	1.39
1958755--1958842	28	3.1	28	75	6	81	47	1	2	48	1.21
1958859--1959505	198	3.3	197	87	4	878	38	14	15	31	1.87
1959573--1959629	23	2.5	23	88	0	78	35	14	7	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1959518--1959684	87	1.9	87	93	0	289	33	13	9	43	1.77
1959593--1959712	64	1.9	64	89	0	186	30	15	9	45	1.77
1959774--1959798	11	2.3	11	100	0	50	16	24	12	48	1.79
1969006--1969039	17	2.1	17	88	5	52	23	23	17	35	1.95
1982445--1982584	5	27.4	5	68	17	65	48	2	2	45	1.32
1982458--1982571	21	5.8	19	68	22	60	46	3	2	47	1.33
1982505--1982588	35	2.4	33	73	23	82	47	2	2	47	1.28
1982575--1982655	36	2.3	33	85	10	99	50	6	0	43	1.27
1983001--1983366	43	8.6	43	76	4	294	24	24	21	29	1.99
1982994--1983308	129	2.5	128	85	2	400	25	25	19	29	1.99
1983029--1983308	128	2.2	129	85	1	366	26	24	19	29	1.98
1993049--1993240	44	4.4	44	83	2	226	43	10	19	26	1.83
1993049--1993252	43	4.7	44	83	3	225	41	10	20	27	1.84
1993049--1993240	87	2.2	88	83	2	262	43	10	19	26	1.83
1993982--1994036	21	2.6	21	77	11	51	47	1	3	47	1.30
1994028--1994147	2	61.0	2	67	23	51	45	5	0	47	1.32
1994063--1994139	19	3.8	19	69	17	57	44	3	0	51	1.19
1994048--1994095	17	2.9	16	81	6	51	41	4	2	52	1.32
1994086--1994179	46	2.0	46	81	8	107	52	5	0	42	1.24
2001437--2001522	30	2.9	30	89	0	127	25	30	23	20	1.99
2001432--2001531	30	3.3	30	81	5	112	26	30	23	21	1.99
2002023--2002104	42	2.0	41	82	2	101	25	12	39	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2011234--2011289	29	2.0	28	85	3	76	69	1	8	19	1.24
2011428--2011505	18	4.5	17	72	13	61	80	3	8	6	1.00
2011448--2011497	11	4.7	11	78	9	50	82	4	8	6	0.96
2011434--2011506	26	2.9	25	74	20	71	79	2	10	6	1.02
2012650--2012706	27	2.2	26	87	9	80	42	5	1	50	1.35
2012680--2012882	37	5.4	38	82	6	238	46	5	3	44	1.43
2012585--2012789	99	2.1	96	80	14	215	44	5	2	46	1.42
2012883--2012963	34	2.2	36	87	8	112	41	12	4	40	1.64
2012984--2013012	2	15.0	2	92	7	51	48	0	0	51	1.00
2013573--2014741	84	13.9	84	87	1	1525	23	18	23	34	1.96
2013573--2014742	337	3.5	335	87	2	1592	23	18	23	34	1.96
2013554--2014741	253	4.7	252	86	1	1556	23	18	23	35	1.96
2015515--2015774	95	2.7	94	86	7	332	30	18	18	33	1.94
2018424--2018467	16	2.8	16	96	0	79	31	38	6	22	1.81
2019521--2019573	19	2.7	19	80	8	54	75	0	3	20	0.96
2019482--2019574	49	1.9	48	82	6	116	73	0	6	20	1.05
2019674--2019718	12	3.7	12	85	5	54	68	2	2	26	1.12
2019729--2019761	11	2.8	12	90	9	50	81	6	0	12	0.85
2019729--2019774	13	3.7	13	86	11	53	80	4	4	10	0.99
2019712--2019784	8	8.9	8	74	16	51	82	2	8	6	0.94
2020871--2020915	20	2.2	20	84	7	56	80	0	4	15	0.87
2021047--2021118	2	36.5	2	94	2	128	47	0	1	51	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2021097--2021284	68	2.7	66	84	11	182	45	6	2	44	1.44
2021130--2021309	37	4.9	37	77	16	178	46	7	1	43	1.42
2021225--2021328	13	8.1	13	68	24	53	46	10	0	43	1.38
2021313--2021376	26	2.5	26	87	5	96	42	7	3	46	1.48
2021315--2021359	24	2.0	23	91	8	74	42	8	2	46	1.47
2022651--2022753	33	3.2	33	88	2	156	44	15	7	32	1.75
2022748--2022789	21	2.0	21	95	0	75	47	7	14	30	1.71
2025914--2026000	26	3.2	26	69	15	86	51	9	12	26	1.69
2025891--2026069	55	3.2	54	86	5	223	48	11	15	25	1.78
2032014--2032046	14	2.5	14	90	9	52	69	3	0	27	1.03
2038485--2038534	26	1.9	26	95	0	91	20	20	26	34	1.96
2045255--2045334	20	3.9	21	70	9	74	43	15	15	26	1.85
2046131--2046233	33	3.2	33	90	2	156	44	15	7	32	1.75
2046228--2046269	21	2.0	21	90	0	66	50	7	11	30	1.66
2066538--2066574	14	2.6	14	95	0	65	16	13	21	48	1.80
2067926--2068551	262	2.4	257	90	6	981	26	12	20	39	1.89
2070084--2070130	21	2.3	21	85	3	60	42	23	12	21	1.87
2070098--2070169	19	3.6	19	86	5	81	34	22	11	31	1.89
2070098--2070188	39	2.3	40	83	5	105	35	21	10	31	1.89
2070020--2070188	20	8.6	20	72	9	107	37	23	12	27	1.90
2073810--2073877	20	3.4	20	91	0	109	22	17	20	39	1.92
2073986--2074140	64	2.4	64	95	1	274	51	17	1	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2076081--2076120	14	2.9	14	100	0	80	50	27	15	7	1.70
2076144--2076187	20	2.2	20	87	0	61	13	13	20	52	1.74
2077147--2077185	19	2.1	19	95	0	69	46	0	23	30	1.53
2080796--2080854	21	2.8	20	80	19	68	30	18	15	35	1.92
2080796--2080841	20	2.2	21	85	14	69	30	15	15	39	1.88
2080862--2080931	19	3.6	19	75	12	63	31	15	10	42	1.80
2088769--2088808	21	1.9	21	85	10	55	50	0	17	32	1.47
2096110--2096137	14	2.0	14	100	0	56	42	7	21	28	1.79
2097798--2097874	23	3.6	23	76	8	65	31	18	19	31	1.96
2098336--2098369	12	2.7	13	86	9	52	35	8	5	50	1.58

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