genome.fa.s8062.2.7.7.80.10.50.1000.8.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: VEPZ01008062.1 Hibiscus syriacus cultivar Beakdansim tig00110557_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2089609

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 995 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)
1777768--1777929	64	2.5	63	86	7	204	26	22	19	31	1.98
1784110--1784142	15	2.2	15	94	0	57	30	33	21	15	1.94
1784227--1784300	29	2.6	29	97	2	141	18	21	16	43	1.88
1784316--1784361	12	3.8	12	91	0	56	41	26	4	28	1.74
1784329--1784370	12	3.4	12	93	3	66	45	23	2	28	1.66
1784671--1784847	64	2.8	64	82	5	198	25	20	22	32	1.98
1784671--1784895	64	3.5	63	81	6	197	26	20	20	32	1.97
1788245--1788347	36	2.9	36	95	0	188	42	17	17	22	1.89
1799590--1799614	3	8.3	3	100	0	50	68	0	0	32	0.90
1799933--1800009	38	2.0	38	97	0	145	32	10	7	49	1.66
1807699--1807728	13	2.3	13	94	0	51	6	6	3	83	0.90
1807734--1807781	21	2.2	21	82	10	53	45	0	10	43	1.38
1820299--1820451	79	1.9	79	81	2	182	32	15	11	41	1.82
1820451--1820490	21	1.9	21	94	0	71	60	0	0	40	0.97
1826584--1826632	23	2.2	22	82	10	55	65	6	12	16	1.45
1829737--1829773	18	2.1	18	89	0	56	5	5	21	67	1.31
1830986--1831019	2	17.0	2	100	0	68	50	0	0	50	1.00
1831386--1831483	43	2.3	43	85	3	126	33	20	20	25	1.97
1831433--1831545	56	2.0	57	89	5	176	33	19	21	25	1.97
1831514--1831596	42	2.0	43	85	2	114	34	20	20	24	1.96
1834983--1835384	125	3.2	125	85	2	558	34	18	19	27	1.95
1834983--1835426	41	10.6	41	81	4	433	33	18	19	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1835024--1835427	166	2.4	165	82	4	445	33	18	19	28	1.95
1834983--1835475	251	2.0	250	83	4	638	33	18	19	28	1.96
1835642--1835681	15	2.8	14	88	7	62	50	0	0	50	1.00
1835649--1835756	31	3.7	30	71	20	95	47	1	0	50	1.18
1837167--1837292	58	2.2	58	92	0	207	36	13	19	30	1.91
1841671--1842229	111	5.0	111	85	1	672	22	23	24	29	1.99
1843376--1843613	124	1.9	123	83	0	305	40	13	15	29	1.86
1852509--1852542	18	2.0	18	88	11	54	20	20	5	52	1.67
1854986--1855172	98	1.9	98	100	0	374	34	26	16	23	1.95
1868918--1868943	9	2.9	9	100	0	52	69	0	0	30	0.89
1870494--1870841	175	2.0	177	92	1	583	27	20	16	34	1.95
1875668--1876055	182	2.1	183	90	3	604	45	8	3	42	1.50
1878612--1878679	35	1.9	36	88	8	104	48	4	0	47	1.22
1887713--1887860	60	2.5	60	76	0	161	32	20	6	39	1.79
1893064--1893250	69	2.8	66	87	7	261	30	18	40	10	1.84
1895495--1895576	41	2.0	41	92	4	139	23	18	28	30	1.97
1895895--1895936	21	2.0	22	85	4	59	42	0	0	57	0.99
1900876--1900901	13	2.0	13	100	0	52	61	15	0	23	1.33
1902541--1902581	20	2.0	21	86	13	59	41	0	9	48	1.36
1910265--1910317	21	2.5	22	81	6	58	47	1	9	41	1.47
1914749--1914785	20	1.9	19	89	10	58	45	5	24	24	1.74
1915488--1915512	13	1.9	13	100	0	50	36	40	8	16	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1917196--1917246	25	2.0	25	100	0	102	49	27	0	23	1.51
1927167--1927197	15	2.0	16	93	6	55	41	6	0	51	1.27
1931172--1931196	13	1.9	13	100	0	50	56	4	8	32	1.47
1931339--1931369	2	15.5	2	100	0	62	51	0	0	48	1.00
1931635--1931701	32	2.1	32	85	0	89	35	1	13	49	1.51
1932878--1932943	2	33.0	2	100	0	132	50	0	0	50	1.00
1934160--1934210	25	2.0	25	100	0	102	31	27	11	29	1.92
1940822--1940895	35	2.1	35	89	0	112	43	18	0	37	1.51
1940892--1940959	35	1.9	35	84	0	91	35	0	19	45	1.50
1942152--1942211	30	2.0	30	93	6	104	33	6	16	43	1.74
1942301--1942343	21	2.0	21	90	0	68	20	37	27	13	1.91
1942434--1942476	21	2.0	21	95	0	77	23	20	27	27	1.99
1945644--1945703	30	2.0	30	93	6	104	33	6	16	43	1.74
1945796--1945835	21	1.9	21	89	0	62	22	30	30	17	1.97
1945926--1945966	21	2.0	21	100	0	82	26	14	29	29	1.95
1945996--1946035	20	1.9	21	85	10	55	37	37	10	15	1.80
1949179--1949212	16	2.1	17	88	5	52	64	0	0	35	0.94
1949393--1949425	17	1.9	17	88	11	50	33	0	0	66	0.92
1954630--1954675	20	2.3	20	88	0	65	23	28	21	26	1.99
1955491--1955544	24	2.2	24	93	0	90	20	18	20	40	1.91
1955734--1955770	14	2.6	14	91	4	56	51	21	21	5	1.68
1957880--1958157	135	2.0	138	94	3	490	28	13	15	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1958128--1958273	20	7.7	20	79	9	162	32	21	19	25	1.97
1958263--1958340	20	3.9	20	86	0	102	14	17	24	43	1.86
1958414--1958549	63	2.1	65	94	2	240	52	15	3	27	1.59
1958507--1958560	29	1.9	27	85	7	72	48	18	0	33	1.49
1958525--1958562	13	2.8	13	96	4	67	47	18	0	34	1.49
1958520--1958568	13	3.7	13	83	5	53	53	16	0	30	1.43
1959945--1960018	21	3.5	21	75	0	85	24	17	33	24	1.96
1959934--1960015	42	2.0	42	87	4	121	24	17	36	21	1.94
1959936--1960041	42	2.5	42	80	3	115	27	16	33	21	1.95
1960515--1960557	19	2.2	20	87	4	61	51	23	11	13	1.74
1960548--1960612	20	3.2	20	91	0	103	35	26	21	16	1.95
1960660--1960757	32	2.9	34	78	6	128	16	20	20	42	1.89
1962645--1962737	20	4.7	20	70	2	71	46	19	16	18	1.85
1963055--1963111	22	2.6	22	91	0	96	17	19	43	19	1.88
1965067--1965091	8	3.1	8	100	0	50	52	0	0	48	1.00
1965926--1966455	260	2.0	267	92	3	887	36	13	17	32	1.88
1970655--1970692	2	19.0	2	100	0	76	50	0	0	50	1.00
1974677--1974749	29	2.6	29	95	2	130	16	8	23	52	1.70
1975071--1975155	31	2.8	31	90	1	127	47	7	10	35	1.66
1980679--1980748	35	2.0	35	100	0	140	22	22	17	37	1.94
1982939--1982964	2	13.0	2	100	0	52	50	0	0	50	1.00
1984183--1984220	19	2.0	19	100	0	76	31	36	21	10	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1984235--1984304	31	2.2	32	87	5	106	31	30	30	8	1.87
1984292--1984380	29	3.2	29	87	6	112	14	29	32	23	1.94
1984319--1984380	29	2.1	29	100	0	124	12	30	32	24	1.93
1984409--1984521	48	2.4	47	85	11	155	21	37	19	22	1.95
1984877--1984966	46	1.9	47	88	6	139	42	0	11	46	1.39
1984837--1984947	43	2.6	41	76	12	107	41	0	10	47	1.38
1984837--1984947	42	2.6	43	76	13	104	41	0	10	47	1.38
1985004--1985084	32	2.5	33	86	9	107	39	0	12	48	1.41
1985141--1985171	15	2.1	14	94	5	53	38	0	6	54	1.26
1985643--1985687	14	3.2	14	80	0	54	8	24	17	48	1.75
1985757--1985814	29	2.0	29	100	0	116	17	10	17	55	1.69
1986709--1986747	19	2.1	19	100	0	78	15	12	5	66	1.41
1988358--1988412	27	2.0	27	82	6	67	61	1	1	34	1.17
1988398--1988429	16	1.9	17	93	6	57	62	0	3	34	1.11
1999007--1999051	21	2.1	21	87	0	63	28	4	8	57	1.48
2003115--2003148	17	2.0	17	88	11	52	58	2	0	38	1.13
2003095--2003169	29	2.4	29	82	8	87	58	1	0	40	1.06
2003098--2003170	14	5.1	14	73	16	53	58	1	0	39	1.06
2006379--2006494	62	1.9	61	87	1	169	47	11	9	31	1.71
2006370--2006501	62	2.1	61	83	4	165	50	12	9	28	1.70
2006505--2006559	2	27.5	2	100	0	110	50	0	0	49	1.00
2007028--2007084	29	1.9	30	89	3	89	35	15	10	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2016846--2016877	2	16.0	2	93	0	55	50	3	46	0	1.17
2017949--2017982	7	5.1	7	96	3	54	23	0	0	76	0.79
2017951--2017984	6	5.3	6	96	3	50	20	0	0	79	0.73
2018491--2018563	23	3.2	22	73	13	67	43	1	2	52	1.24
2018520--2018572	20	2.6	20	74	14	63	47	1	1	49	1.23
2033751--2033783	2	16.5	2	100	0	66	0	0	48	51	1.00
2042963--2043000	18	2.1	18	100	0	76	36	21	23	18	1.95
2044546--2044589	20	2.2	20	87	0	61	34	22	27	15	1.95
2044562--2044616	28	2.0	28	96	0	101	23	25	23	27	2.00
2046507--2046714	80	2.5	80	91	3	326	35	20	17	26	1.95

Tables:   1   2   3   4   5   6   7   8   9