genome.fa.s7961.2.7.7.80.10.50.1000.9.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: VEPZ01007961.1 Hibiscus syriacus cultivar Beakdansim tig00110388_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2700559

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

This is table  9  of  12  ( 1371 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)
1827501--1827573	12	6.0	12	67	20	53	57	16	1	24	1.47
1829424--1829480	14	3.7	14	77	20	60	45	22	21	10	1.82
1829405--1829497	33	2.8	33	95	0	168	47	21	20	10	1.80
1829368--1829502	19	7.6	19	75	16	119	46	22	19	11	1.81
1829498--1829626	19	7.3	19	75	17	125	8	17	28	45	1.77
1829498--1829589	33	2.8	33	93	3	150	7	18	28	45	1.76
1829670--1830048	93	4.1	93	98	1	744	46	18	12	22	1.83
1829670--1830048	185	2.0	185	98	1	742	46	18	12	22	1.83
1831760--1831857	19	5.7	18	73	22	86	42	22	24	10	1.84
1831748--1831835	14	5.7	14	72	25	63	42	23	25	9	1.83
1831741--1831852	33	3.5	33	91	3	185	44	21	24	9	1.82
1831869--1831923	14	3.6	14	73	21	56	9	25	23	41	1.83
1831853--1831923	33	2.2	33	94	0	124	8	22	25	43	1.81
1831864--1831943	33	2.5	33	89	2	117	10	25	22	42	1.84
1831880--1831949	18	4.1	18	73	16	67	11	24	20	44	1.84
1832044--1832111	33	2.1	33	91	0	109	48	19	22	10	1.78
1832293--1832347	22	2.5	22	81	0	74	20	16	40	23	1.91
1832493--1832686	20	9.6	20	82	5	221	19	19	25	35	1.95
1832493--1832686	60	3.2	60	83	0	253	19	19	25	35	1.95
1832653--1832751	21	4.8	20	72	6	72	21	19	22	37	1.94
1832741--1832792	20	2.6	20	96	0	95	21	13	26	38	1.90
1833819--1833877	31	1.9	30	83	10	75	49	11	0	38	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1834548--1834598	22	2.3	22	86	3	75	21	19	19	39	1.93
1835281--1835323	22	2.0	22	90	0	68	37	16	20	25	1.93
1835703--1835753	20	2.6	20	90	3	86	35	25	7	31	1.85
1839619--1839669	22	2.3	22	86	10	68	25	21	15	37	1.93
1847979--1848021	15	2.8	15	85	3	59	53	0	4	41	1.21
1847990--1848037	22	2.1	23	85	11	64	54	0	6	39	1.26
1849812--1849844	15	2.1	16	88	5	50	33	0	6	60	1.21
1857415--1857440	3	8.7	3	100	0	52	30	0	0	69	0.89
1862218--1862586	20	18.5	20	84	5	442	34	26	18	20	1.96
1863251--1863296	24	2.0	23	87	12	67	26	15	21	36	1.93
1865264--1865611	19	19.8	19	77	17	353	46	17	20	15	1.84
1865292--1865570	52	5.2	53	87	8	349	46	16	20	15	1.83
1865331--1865570	71	3.4	71	82	11	337	47	17	20	15	1.83
1865264--1865611	142	2.5	141	88	6	496	46	17	20	15	1.84
1865331--1865611	52	5.3	54	86	9	295	46	17	19	16	1.84
1865682--1865718	14	2.6	14	91	0	65	45	21	0	32	1.52
1867673--1867729	14	3.7	14	77	20	60	45	22	21	10	1.82
1867654--1867746	33	2.8	33	95	0	168	47	21	20	10	1.80
1867617--1867751	19	7.6	19	76	16	128	45	23	19	11	1.82
1867747--1867875	19	7.3	19	75	17	125	8	17	28	45	1.77
1867747--1867838	33	2.8	33	93	3	150	7	18	28	45	1.76
1867919--1868203	91	3.1	93	97	2	549	45	18	12	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1869900--1869989	14	5.7	14	74	23	81	42	23	25	8	1.83
1869892--1870006	33	3.5	33	95	0	212	45	20	24	9	1.81
1869899--1870011	19	6.8	18	72	23	88	43	22	24	9	1.83
1870023--1870077	14	3.6	14	73	21	56	9	27	23	40	1.85
1870198--1870268	33	2.2	33	92	0	115	47	18	22	11	1.80
1870448--1870502	22	2.5	22	81	0	74	20	16	40	23	1.91
1870645--1870838	20	9.6	20	82	5	221	19	19	25	35	1.95
1870645--1870838	60	3.2	60	83	0	253	19	19	25	35	1.95
1870831--1870907	21	3.7	20	70	13	57	27	16	23	32	1.96
1870893--1870944	20	2.6	20	96	0	95	21	13	26	38	1.90
1874736--1874810	35	2.1	37	90	5	118	46	1	1	50	1.18
1878261--1878314	20	2.8	20	83	5	67	29	31	20	18	1.96
1878950--1879001	19	2.7	19	93	0	95	23	28	17	30	1.97
1882486--1882539	21	2.6	21	96	0	99	29	11	9	50	1.69
1885150--1885206	21	2.9	21	82	12	75	29	31	19	19	1.96
1891936--1891975	20	2.0	20	95	0	71	45	12	5	37	1.64
1891932--1892081	53	2.9	51	95	3	264	47	12	6	33	1.68
1892042--1892080	20	2.0	20	89	0	60	41	15	5	38	1.69
1896927--1896959	13	2.6	13	90	4	50	60	3	36	0	1.12
1921931--1921977	23	2.0	23	87	0	67	38	6	17	38	1.75
1921887--1922117	87	2.7	87	90	3	342	43	10	12	34	1.76
1922675--1922715	21	2.0	21	85	9	57	39	12	0	48	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1935572--1935602	2	15.5	2	100	0	62	51	0	0	48	1.00
1939574--1939618	3	15.0	3	100	0	90	33	0	0	66	0.92
1944837--1944878	20	2.1	20	90	0	66	38	0	2	59	1.10
1944960--1945150	90	2.1	90	93	3	323	48	7	10	32	1.66
1945557--1945587	16	2.0	15	93	6	53	51	0	0	48	1.00
1947814--1947852	16	2.3	18	82	8	55	71	2	7	17	1.21
1949449--1949485	13	2.8	13	91	0	65	16	48	21	13	1.80
1949427--1949472	18	2.6	18	92	0	74	17	50	19	13	1.78
1950817--1950895	39	2.0	39	100	0	158	17	30	17	34	1.94
1951439--1951486	18	2.7	18	90	0	69	22	50	16	10	1.76
1951439--1951502	18	3.6	18	80	4	67	21	45	18	14	1.85
1955628--1955851	37	6.3	36	73	14	189	40	14	19	25	1.90
1955628--1955818	67	2.7	71	83	6	212	41	14	18	25	1.89
1955693--1955853	73	2.2	73	84	2	207	40	15	19	24	1.90
1956516--1956578	32	2.0	32	84	6	83	33	20	14	31	1.92
1957632--1957688	25	2.3	24	80	16	64	3	17	3	75	1.09
1960765--1960789	13	1.9	13	100	0	50	64	8	0	28	1.22
1967144--1967186	17	2.4	18	80	3	52	41	2	2	53	1.26
1976676--1976709	9	3.8	9	100	0	68	23	23	23	29	1.99
1979772--1979847	2	38.0	2	100	0	152	50	0	0	50	1.00
1995684--1995727	21	2.1	21	86	0	61	31	27	25	15	1.96
1996241--1996287	23	2.0	24	91	4	78	44	0	21	34	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1996463--1996617	31	5.0	31	92	3	251	21	20	21	37	1.95
1999612--1999655	21	2.1	21	86	0	61	31	27	25	15	1.96
2000389--2000544	31	5.0	31	92	1	251	21	19	21	37	1.95
2001583--2001622	16	2.4	17	83	4	55	67	2	7	22	1.28
2003690--2003721	15	2.1	15	100	0	64	37	12	31	18	1.88
2005930--2005969	18	2.2	18	91	8	64	72	0	10	17	1.11
2011223--2011352	60	2.2	60	83	9	158	33	15	17	33	1.91
2020831--2020882	20	2.6	20	96	0	95	38	26	13	21	1.90
2020873--2020970	21	4.8	20	71	6	70	35	21	20	22	1.96
2020938--2021130	60	3.2	60	82	0	242	35	25	19	19	1.96
2020938--2021130	20	9.6	20	80	5	210	35	25	19	19	1.96
2021512--2021582	33	2.2	33	92	0	115	11	22	18	47	1.80
2021703--2021757	14	3.6	14	73	21	56	41	23	25	9	1.83
2021703--2021773	33	2.2	33	94	0	124	43	25	22	8	1.81
2021769--2021866	19	5.7	19	70	22	81	10	24	22	42	1.84
2021791--2021880	14	5.7	14	74	23	81	8	25	23	42	1.83
2021774--2021888	33	3.5	33	95	0	212	9	24	20	45	1.81
2023587--2024151	185	3.0	186	98	0	1107	22	12	18	46	1.83
2023587--2024151	93	6.1	93	99	0	1107	22	12	18	46	1.83
2024195--2024323	19	7.3	19	75	17	125	45	28	17	8	1.77
2024231--2024323	33	2.8	32	91	4	150	46	27	18	7	1.76
2024195--2024323	52	2.5	52	74	14	140	45	28	17	8	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2024319--2024437	19	6.8	19	75	18	96	11	19	21	47	1.81
2024341--2024397	14	3.7	14	77	20	60	10	21	22	45	1.82
2024327--2024416	33	2.7	33	92	0	153	12	20	21	46	1.82
2024388--2024453	19	3.4	20	87	6	100	12	15	27	45	1.81
2026376--2026411	14	2.6	14	95	0	63	33	0	22	44	1.53
2026517--2026618	19	5.6	19	84	13	151	44	17	23	14	1.86
2026647--2026886	19	13.4	19	84	12	348	14	20	17	47	1.83
2026625--2026933	52	5.9	50	82	11	263	14	20	18	46	1.83
2026647--2026933	71	4.1	71	83	12	373	13	20	18	47	1.83
2026609--2026886	142	2.0	142	95	1	504	15	20	17	46	1.84

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