genome.fa.s8425.2.7.7.80.10.50.1000.10.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: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2340112

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

This is table  10  of  12  ( 1340 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)
1785143--1785302	64	2.5	63	81	7	196	26	19	23	30	1.98
1785315--1785353	20	2.0	20	94	0	69	17	15	35	30	1.91
1791237--1791276	21	1.9	21	85	10	55	35	10	2	52	1.48
1793312--1793348	19	1.9	19	94	0	65	24	16	37	21	1.93
1793208--1793364	62	2.5	61	83	6	172	27	15	24	31	1.96
1793375--1793413	20	2.0	20	89	0	60	17	12	35	33	1.88
1794898--1794937	20	2.0	20	100	0	80	40	20	5	35	1.74
1796044--1796077	17	1.9	18	88	5	52	58	0	0	41	0.98
1799569--1799645	32	2.4	32	82	6	95	35	16	15	32	1.91
1805283--1805307	12	2.1	12	100	0	50	40	0	8	52	1.31
1805365--1805403	21	1.9	20	84	5	51	46	12	2	38	1.56
1806737--1806830	44	2.1	44	84	7	120	29	22	18	29	1.97
1813206--1813262	30	2.0	28	83	13	71	31	7	10	50	1.63
1813401--1813433	2	16.5	2	100	0	66	48	0	0	51	1.00
1813993--1814042	14	3.6	14	77	0	55	54	0	0	46	1.00
1825045--1825082	15	2.4	16	82	8	51	60	5	0	34	1.19
1826278--1826310	17	1.9	17	93	0	57	45	0	3	51	1.16
1826584--1826903	105	3.0	105	95	0	577	22	18	24	34	1.96
1827687--1827777	46	1.9	48	86	4	132	15	26	15	42	1.86
1838404--1838441	15	2.4	16	82	8	51	60	5	0	34	1.19
1839641--1839674	2	17.5	2	87	6	52	47	0	2	50	1.16
1839636--1839668	17	1.9	17	93	0	57	45	0	3	51	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1842053--1842101	12	4.2	12	77	15	57	28	2	0	69	1.00
1842035--1842159	63	2.0	61	90	7	200	32	3	8	56	1.45
1850978--1851048	27	2.6	27	78	12	83	47	2	2	46	1.31
1850976--1851079	26	3.9	25	75	15	84	44	2	2	50	1.32
1858780--1858809	14	2.1	14	100	0	60	53	13	13	20	1.72
1860567--1860905	117	2.9	117	86	2	450	25	20	15	38	1.92
1861249--1861449	36	5.6	36	77	6	120	44	7	13	33	1.74
1861241--1861465	72	3.1	72	75	7	213	44	8	15	32	1.77
1862111--1862152	17	2.4	17	84	11	50	16	19	16	47	1.83
1863247--1863340	6	16.8	6	76	18	80	3	15	0	80	0.83
1863248--1863305	5	10.8	5	83	12	71	1	15	0	82	0.74
1863218--1863306	32	2.8	33	81	10	96	2	20	0	77	0.87
1863248--1863339	22	4.2	22	80	14	100	3	16	0	80	0.84
1863253--1863340	39	2.3	39	84	9	110	3	15	0	80	0.84
1863245--1863340	10	9.6	10	80	13	58	3	16	0	80	0.84
1863246--1863345	9	10.8	9	71	9	67	4	16	0	80	0.87
1864664--1864737	14	5.4	14	70	12	55	51	6	20	21	1.70
1864672--1864737	27	2.4	27	85	9	82	51	6	19	22	1.69
1869588--1869684	2	48.5	2	100	0	194	49	0	0	50	1.00
1869587--1869708	18	7.1	17	91	5	60	45	0	2	51	1.14
1873377--1873416	21	1.9	21	85	10	55	52	0	10	37	1.35
1877241--1877329	23	3.9	23	72	14	85	28	24	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1877959--1878009	24	2.1	24	89	7	77	21	41	0	37	1.54
1881229--1881270	22	2.0	21	85	4	57	57	2	0	40	1.12
1881421--1881453	9	3.9	9	84	15	52	48	0	6	45	1.27
1881416--1881456	16	2.6	16	100	0	82	53	0	4	41	1.22
1882803--1882888	25	3.3	25	70	12	73	45	1	1	52	1.16
1882822--1882853	15	2.2	15	94	5	57	50	0	0	50	1.00
1882804--1882969	62	2.9	56	80	11	185	43	1	1	53	1.19
1882892--1882993	42	2.4	42	78	10	111	43	0	1	53	1.18
1883017--1883051	2	18.0	2	94	5	63	51	0	0	48	1.00
1893159--1893185	2	13.5	2	100	0	54	51	0	0	48	1.00
1902239--1902374	59	2.3	59	82	3	148	33	25	3	37	1.73
1917288--1917334	18	2.5	19	86	3	60	36	6	2	55	1.37
1918002--1918083	21	4.0	21	87	3	121	15	29	35	19	1.93
1918002--1918083	41	2.0	40	90	2	128	15	29	35	19	1.93
1918423--1918480	26	2.2	26	100	0	116	27	39	0	32	1.57
1919544--1919591	19	2.5	20	82	3	62	29	12	6	52	1.63
1920453--1920517	34	2.0	33	87	6	96	26	24	16	32	1.96
1920869--1920929	20	3.0	21	87	4	88	16	27	37	18	1.92
1921624--1921675	20	2.7	20	81	3	61	32	23	13	30	1.93
1921999--1922032	18	1.9	17	88	5	50	58	17	2	20	1.51
1922658--1922776	62	1.9	62	82	0	148	27	10	26	34	1.90
1929032--1929109	29	2.6	30	87	6	122	39	6	0	53	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1930171--1930251	26	3.0	26	65	26	60	33	14	18	33	1.92
1932208--1932246	20	1.9	20	84	5	51	61	5	10	23	1.48
1936957--1937077	60	2.0	60	96	0	224	33	8	16	41	1.78
1937088--1937150	31	2.0	31	93	0	108	36	6	15	41	1.73
1941569--1941593	2	12.5	2	100	0	50	52	0	48	0	1.00
1950026--1950074	24	2.0	24	100	0	98	20	32	20	26	1.97
1950031--1950087	24	2.4	24	87	0	78	28	31	19	21	1.97
1952673--1952699	14	1.9	14	100	0	54	59	0	0	40	0.98
1952736--1953036	32	10.5	31	73	24	256	53	10	0	35	1.39
1952760--1952811	14	3.4	14	71	19	50	55	5	0	38	1.24
1952679--1953084	80	5.0	80	78	14	286	52	11	0	35	1.40
1952802--1952850	22	2.2	22	85	3	62	57	12	0	30	1.36
1952856--1952904	22	2.2	22	85	3	62	55	12	0	32	1.37
1952822--1953053	80	2.8	83	84	10	328	53	11	0	35	1.37
1952956--1953035	14	5.1	15	69	21	65	55	8	0	36	1.31
1953020--1953095	22	3.5	22	92	0	134	51	9	0	39	1.34
1952768--1952928	54	3.0	54	96	0	295	52	10	0	36	1.36
1953083--1953292	15	14.0	15	92	1	332	50	0	0	49	1.07
1957069--1957104	14	2.6	14	86	0	54	38	8	13	38	1.75
1957134--1957180	2	23.5	2	100	0	94	51	0	0	48	1.00
1958785--1958866	22	3.6	23	75	18	66	15	8	1	74	1.12
1958769--1958875	9	11.9	9	69	18	53	16	7	2	72	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1959697--1959750	21	2.5	21	78	18	58	20	1	1	75	0.98
1959722--1959806	22	3.7	22	76	21	86	15	9	0	75	1.04
1959696--1959811	9	13.3	9	73	14	66	17	7	0	74	1.10
1959783--1959854	37	1.9	38	86	8	103	12	13	1	72	1.20
1962620--1962663	20	2.2	20	91	0	70	34	11	22	31	1.90
1964981--1965038	19	3.2	18	72	20	57	15	6	1	75	1.09
1971709--1971747	20	2.0	20	89	0	60	33	10	23	33	1.88
1974709--1975438	124	5.9	124	89	0	1082	33	23	17	26	1.96
1975512--1976471	84	11.4	84	79	4	925	34	23	18	23	1.96
1975504--1976471	168	5.8	168	84	3	1056	34	23	18	24	1.96
1980192--1980232	8	4.7	9	82	14	50	21	0	4	73	1.02
1980192--1980248	18	3.2	18	80	14	57	19	0	3	77	0.92
1980192--1980276	26	3.3	26	79	9	77	18	4	2	74	1.11
1980214--1980278	18	3.4	19	76	16	64	16	6	0	76	0.97
1980309--1980334	9	2.9	9	100	0	52	7	11	0	80	0.89
1980212--1980325	44	2.5	46	81	13	123	14	10	0	73	1.14
1982328--1983556	4	309.5	4	98	1	2377	49	25	0	24	1.51
1983542--1984209	2	335.5	2	98	0	1288	49	50	0	0	1.03
1984207--1984311	4	26.2	4	96	0	165	45	24	4	24	1.72
1986007--1986081	26	2.9	26	100	0	150	40	14	8	37	1.76
1987257--1987287	2	15.5	2	100	0	62	0	0	51	48	1.00
1992636--1992692	21	2.7	21	86	10	73	31	14	19	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1992648--1992705	21	2.8	20	82	5	64	27	15	20	36	1.93
1992738--1992776	21	1.9	21	89	5	62	35	10	17	35	1.84
2004980--2005256	45	6.2	45	88	0	410	25	22	7	45	1.78
2008188--2008426	45	5.3	45	84	2	273	26	19	9	44	1.81
2012910--2012944	6	5.5	6	87	12	52	82	17	0	0	0.66
2015548--2015654	34	3.2	34	93	1	180	28	18	5	47	1.71
2024095--2024170	32	2.4	31	82	8	91	14	13	32	39	1.85
2024348--2024410	27	2.3	27	97	0	117	15	4	34	44	1.68
2024343--2024415	27	2.4	31	76	21	91	15	6	36	41	1.73
2024459--2024890	216	2.0	210	92	3	722	24	12	27	35	1.91

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