genome.fa.s9067.2.7.7.80.10.50.1000.9.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: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2329927

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

This is table  9  of  10  ( 1150 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)
1838999--1839136	21	6.7	19	74	14	114	36	21	20	22	1.95
1846787--1846947	64	2.5	65	86	7	204	33	18	22	26	1.96
1847438--1847472	18	1.9	18	88	11	54	54	5	17	22	1.64
1847802--1847865	2	32.0	2	100	0	128	50	0	0	50	1.00
1848410--1848724	149	2.1	149	95	1	560	26	17	21	33	1.96
1848692--1848736	23	2.0	23	90	0	72	22	26	26	24	2.00
1852102--1852262	64	2.5	65	86	7	204	33	18	22	26	1.96
1852754--1852788	18	1.9	18	88	11	54	54	5	17	22	1.64
1853122--1853183	2	31.0	2	100	0	124	50	0	0	50	1.00
1853730--1854036	147	2.1	146	92	3	514	26	17	22	33	1.96
1854004--1854048	23	2.0	23	90	0	72	22	26	26	24	2.00
1858655--1858695	19	2.1	20	86	4	57	26	19	34	19	1.96
1864017--1864053	17	2.1	18	90	5	58	29	10	8	51	1.65
1865249--1865312	24	2.7	24	77	15	71	25	1	3	70	1.11
1865256--1865304	23	2.1	24	85	14	68	24	2	4	69	1.17
1868425--1868469	17	2.6	17	80	16	56	37	4	13	44	1.64
1879525--1879592	18	3.8	18	80	9	86	36	8	11	42	1.73
1879525--1879592	35	1.9	35	88	5	102	36	8	11	42	1.73
1880563--1880623	17	3.5	17	78	13	70	39	11	8	40	1.71
1880556--1880623	35	1.9	35	88	5	102	38	11	8	41	1.73
1889946--1890186	70	3.4	70	95	0	428	51	17	13	17	1.76
1894312--1894783	180	2.6	180	89	0	692	42	13	16	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1894704--1894750	20	2.4	19	82	10	67	53	10	17	19	1.72
1894715--1894755	20	2.2	19	83	12	50	51	14	17	17	1.77
1896971--1897035	21	3.1	21	88	0	94	41	10	27	20	1.85
1898916--1898964	19	2.6	19	96	0	89	32	2	10	55	1.45
1899198--1899993	200	4.0	200	95	0	1394	35	14	18	31	1.91
1901457--1901493	12	3.1	12	88	0	56	43	8	32	16	1.77
1901474--1901524	3	17.0	3	83	0	57	41	1	31	25	1.67
1902817--1903059	120	2.0	120	92	0	405	32	13	15	38	1.86
1903116--1903353	118	2.0	117	89	5	365	32	13	15	38	1.87
1903413--1903659	120	2.1	120	94	1	433	32	13	15	38	1.87
1906538--1906607	21	3.2	23	82	10	92	35	5	20	38	1.76
1919576--1919609	16	2.1	17	88	5	52	29	0	2	67	1.05
1919646--1919698	21	2.5	20	79	11	61	37	1	3	56	1.28
1921243--1921277	2	17.5	2	93	0	61	45	2	0	51	1.16
1921446--1921536	19	4.4	20	74	17	96	36	5	27	30	1.80
1927896--1927921	5	5.2	5	100	0	52	0	19	0	80	0.71
1929119--1929197	26	3.2	25	80	7	81	39	2	0	58	1.12
1929148--1929198	26	2.0	26	92	0	84	35	1	0	62	1.06
1929794--1929830	20	1.9	19	89	10	58	45	10	24	18	1.81
1930848--1930905	31	1.9	29	83	13	73	41	22	6	29	1.80
1934619--1934685	20	3.2	20	80	4	71	35	5	1	56	1.33
1935088--1935129	2	21.5	2	95	4	77	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1935823--1935853	2	15.5	2	100	0	62	48	0	0	51	1.00
1940323--1940362	21	1.9	21	100	0	80	20	10	35	35	1.86
1940819--1940848	11	2.7	11	100	0	60	56	20	6	16	1.62
1942672--1942858	73	2.6	73	88	1	268	49	10	5	34	1.61
1942682--1942858	37	4.9	35	65	24	91	48	10	5	35	1.62
1942666--1942796	36	3.5	37	65	24	87	51	9	5	33	1.58
1950528--1950576	5	9.8	5	93	0	62	6	40	36	16	1.73
1950574--1950640	6	11.2	6	96	0	98	5	16	49	28	1.69
1950912--1950966	22	2.5	22	75	0	56	29	9	23	38	1.85
1956491--1956539	5	9.8	5	93	0	62	6	40	36	16	1.73
1956537--1956597	6	10.2	6	96	0	95	4	16	49	29	1.66
1956871--1956924	22	2.5	22	75	3	56	29	9	24	37	1.86
1958801--1958867	32	2.0	34	83	11	86	34	0	5	59	1.22
1959070--1959214	69	2.1	69	96	0	263	33	11	15	38	1.84
1967712--1967746	15	2.3	15	95	0	61	37	31	11	20	1.88
1972696--1972766	35	2.0	35	97	0	133	30	15	14	39	1.87
1978670--1978860	55	3.6	51	85	6	208	29	24	17	28	1.97
1978670--1979011	51	6.5	55	88	5	342	27	26	16	29	1.97
1978717--1979026	51	5.9	51	87	4	377	28	26	16	28	1.97
1979217--1979251	17	2.1	17	100	0	70	17	22	14	45	1.84
1980368--1980405	8	4.9	8	81	18	53	7	15	0	76	1.01
1980358--1980407	22	2.3	22	86	10	75	6	14	0	80	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1980352--1980405	16	3.6	15	83	14	67	7	14	0	77	0.97
1980428--1980469	18	2.4	18	84	4	59	4	14	4	76	1.12
1980438--1980476	18	2.3	18	91	8	64	7	12	5	74	1.20
1996213--1996306	35	2.7	34	85	4	125	45	24	1	28	1.60
1996472--1996749	148	1.9	144	91	3	459	37	7	9	46	1.65
2000787--2000821	18	1.9	18	88	0	52	17	31	31	20	1.95
2000850--2000890	22	1.9	21	90	5	64	70	4	0	24	1.06
2003391--2003460	33	2.1	33	97	0	131	44	8	7	40	1.62
2005911--2005941	2	15.5	2	100	0	62	48	0	51	0	1.00
2008750--2008825	35	2.2	35	90	4	118	39	23	2	34	1.69
2009222--2009468	129	1.9	130	90	2	399	37	14	12	35	1.85
2009395--2009442	23	2.2	21	85	7	60	33	14	18	33	1.91
2009797--2009859	28	2.3	27	78	8	63	46	1	3	49	1.27
2009939--2009972	16	2.0	18	88	11	54	64	5	2	26	1.30
2013303--2013332	15	2.0	15	93	0	51	6	16	66	10	1.41
2017365--2017412	21	2.3	21	92	0	78	66	8	12	12	1.44
2022544--2022585	21	2.0	21	95	4	77	33	4	0	61	1.17
2022541--2022587	20	2.4	19	89	10	76	38	4	0	57	1.18
2023002--2023049	2	24.0	2	100	0	96	50	0	0	50	1.00
2029444--2029616	90	1.9	91	85	5	244	28	24	17	28	1.98
2029493--2029617	45	2.8	44	71	10	119	27	23	18	31	1.97
2035447--2035527	23	3.7	23	77	8	96	25	25	24	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2035447--2035545	43	2.3	42	81	6	110	26	25	25	23	2.00
2038130--2038181	19	2.7	19	96	0	95	32	30	17	19	1.95
2038065--2038226	83	1.9	84	85	3	220	30	24	17	28	1.97
2053079--2053105	14	1.9	14	100	0	54	22	40	7	29	1.81
2058719--2058773	29	2.0	29	86	13	80	40	20	14	25	1.90
2058725--2058781	29	2.1	28	81	12	66	45	15	15	22	1.84
2061159--2061199	21	2.0	21	95	0	73	34	14	2	48	1.57
2061195--2061298	33	3.2	33	90	1	165	29	6	18	45	1.75
2064935--2065139	102	2.0	101	89	0	311	37	20	5	36	1.77
2072215--2072282	31	2.2	31	97	0	127	23	10	29	36	1.88
2073237--2073309	36	2.0	36	84	10	96	49	2	1	46	1.24
2073232--2073311	37	2.2	37	80	15	94	51	2	1	45	1.22
2079472--2079591	58	2.1	57	93	3	213	50	1	15	32	1.55
2079897--2080040	76	1.9	76	88	2	218	34	13	11	40	1.80
2079958--2080141	100	1.8	100	87	2	271	33	11	11	42	1.78
2080069--2080301	77	3.0	76	79	7	247	33	12	12	41	1.81
2080206--2080243	20	2.0	19	85	10	51	28	15	0	55	1.41
2080058--2080293	76	3.1	76	78	4	251	32	12	11	43	1.79
2079897--2080469	253	2.3	252	82	7	687	32	13	12	41	1.81
2080146--2080566	176	2.4	179	81	8	510	32	13	11	42	1.79
2080211--2080393	100	1.8	100	82	2	233	33	13	10	42	1.80
2080311--2080469	76	2.1	76	85	2	212	30	15	11	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2082097--2082174	23	3.2	26	74	22	71	41	0	2	56	1.13
2095541--2095608	29	2.3	30	80	5	77	50	20	5	23	1.70
2095614--2095638	13	1.9	13	100	0	50	20	16	48	16	1.82
2102588--2102672	29	3.0	28	84	8	102	45	20	5	28	1.74
2107610--2107690	42	1.9	42	87	0	117	49	11	16	23	1.77
2107715--2107778	32	2.0	32	93	0	110	34	20	7	37	1.81
2120011--2120079	34	2.0	34	100	0	138	31	18	17	31	1.94
2138924--2138965	21	2.0	21	90	4	66	78	0	14	7	0.95
2138922--2138964	14	2.9	14	93	6	68	76	0	16	6	0.99
2138906--2138965	7	8.3	7	77	5	57	76	0	16	6	0.99

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