genome.fa.s2890.2.7.7.80.10.50.1000.8.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  8  of  21  ( 2516 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)
1776225--1776328	39	2.7	39	83	5	113	18	21	25	34	1.96
1779763--1779844	39	2.1	39	83	0	101	18	19	29	32	1.95
1787397--1787638	47	5.2	47	94	1	398	33	21	6	38	1.79
1789623--1789701	30	2.7	29	82	9	88	32	18	6	41	1.76
1791498--1791579	16	5.3	15	75	13	62	7	10	1	80	0.96
1791496--1791556	17	3.6	17	81	16	65	9	14	0	75	1.04
1791498--1791588	11	8.7	10	74	12	58	6	10	2	80	0.98
1794364--1794582	47	4.8	47	92	3	333	32	20	6	39	1.79
1794697--1794812	61	1.9	61	80	3	135	31	25	15	26	1.96
1795700--1795766	29	2.3	29	76	0	71	31	19	8	40	1.82
1797085--1797144	20	3.1	19	69	9	57	33	3	5	58	1.36
1797130--1797166	19	1.9	19	88	0	56	35	16	8	40	1.78
1797929--1798138	65	3.2	65	81	6	214	30	24	19	26	1.98
1798081--1798186	45	2.4	45	98	0	203	25	22	19	32	1.98
1798155--1798203	19	2.6	19	84	9	57	24	28	20	26	1.99
1798422--1798457	11	3.4	11	88	3	56	58	5	27	8	1.50
1805441--1805484	21	2.1	21	82	0	52	9	43	15	31	1.79
1806499--1806697	65	3.1	64	78	11	183	30	22	19	27	1.98
1808965--1809002	20	1.9	20	100	0	76	39	21	10	28	1.86
1816500--1816543	22	2.0	23	86	13	65	25	0	25	50	1.50
1821542--1821585	22	2.0	23	86	13	65	25	0	25	50	1.50
1824379--1824455	31	2.5	31	78	2	82	14	25	31	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1826563--1826644	26	3.2	26	89	0	128	7	45	24	23	1.78
1830540--1830601	27	2.2	29	80	5	83	29	16	11	43	1.82
1831095--1831132	15	2.4	16	86	4	51	65	5	10	18	1.41
1832405--1832448	21	2.1	21	87	8	63	31	11	13	43	1.80
1834042--1834097	3	18.7	3	88	0	85	35	3	0	60	1.14
1844034--1844095	20	3.1	20	64	32	51	30	14	11	43	1.80
1843882--1844430	40	13.7	40	91	1	710	28	15	12	42	1.84
1844418--1844597	35	4.9	36	81	8	166	28	21	11	37	1.89
1844532--1844660	63	2.0	63	86	5	181	30	16	15	37	1.90
1845445--1845508	20	3.2	20	68	10	60	43	12	21	21	1.86
1845229--1845980	117	6.6	117	83	5	845	38	14	21	25	1.91
1845229--1845980	232	3.3	232	82	6	798	38	14	21	25	1.91
1845229--1845980	349	2.2	335	83	7	912	38	14	21	25	1.91
1845910--1845974	20	3.3	20	67	18	55	44	12	21	21	1.85
1845891--1846066	91	1.9	91	90	4	284	43	13	19	24	1.86
1846219--1846289	3	23.7	3	100	0	142	33	0	0	66	0.92
1848491--1848582	46	2.0	46	100	0	184	34	26	15	23	1.94
1857065--1857123	18	3.1	19	76	11	50	52	0	6	40	1.28
1857065--1857104	20	2.1	19	86	13	55	55	0	2	42	1.13
1857630--1857673	21	2.1	21	91	0	70	31	9	13	45	1.75
1860068--1860131	27	2.3	28	78	5	76	32	10	7	48	1.67
1862061--1862113	21	2.5	21	96	0	97	32	9	26	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1863310--1863348	20	1.9	21	89	5	62	51	20	2	25	1.60
1867406--1867436	16	1.9	16	93	0	53	29	25	19	25	1.99
1867588--1867639	25	2.1	25	88	0	77	17	40	26	15	1.89
1877975--1878117	28	5.3	26	76	14	112	79	1	16	2	0.92
1877997--1878109	27	4.5	24	72	22	74	79	1	16	1	0.90
1877971--1878117	10	13.9	10	71	16	84	79	1	16	2	0.91
1877971--1878117	21	7.0	20	72	13	84	79	1	16	2	0.91
1877973--1878117	17	8.3	16	71	17	92	80	1	15	2	0.91
1878004--1878117	45	2.5	44	77	15	117	80	1	15	1	0.87
1877973--1878109	73	1.9	74	83	8	183	79	1	16	2	0.92
1877975--1878092	9	12.7	10	69	24	73	79	1	15	3	0.94
1877973--1878116	72	2.0	72	82	9	177	79	1	15	2	0.91
1877981--1878123	18	8.2	16	72	19	74	78	1	16	4	0.98
1881750--1882259	106	4.8	106	89	2	767	38	16	20	24	1.93
1881750--1882259	211	2.4	212	89	2	778	38	16	20	24	1.93
1882544--1882584	17	2.3	18	80	16	50	41	0	0	58	0.98
1898612--1898636	11	2.3	11	100	0	50	8	8	36	48	1.62
1901604--1901632	3	9.7	3	100	0	58	65	0	34	0	0.93
1904328--1904471	39	3.7	40	77	9	147	18	26	22	31	1.97
1904769--1904794	2	13.0	2	100	0	52	50	0	0	50	1.00
1909641--1909678	17	2.2	18	86	9	53	26	18	2	52	1.58
1918819--1919000	39	4.7	39	80	2	186	20	29	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1918818--1919009	78	2.5	77	80	4	206	21	29	17	31	1.96
1927694--1927742	16	3.2	16	77	16	59	65	2	4	28	1.22
1931312--1931364	3	17.7	3	100	0	106	32	0	0	67	0.91
1934006--1934131	23	5.5	23	80	1	146	29	6	12	51	1.64
1934007--1934131	46	2.7	46	90	2	189	29	6	12	51	1.65
1941248--1941293	22	2.0	23	83	4	58	39	8	28	23	1.84
1941975--1942028	14	3.9	14	85	0	63	25	31	20	22	1.98
1944225--1944308	31	2.7	31	77	0	96	16	28	29	25	1.97
1946645--1946694	18	2.8	18	82	11	59	48	0	4	48	1.20
1946664--1946703	18	2.3	17	86	4	53	50	0	5	45	1.23
1947562--1947621	2	30.0	2	100	0	120	50	0	0	50	1.00
1968763--1968898	57	2.3	58	81	6	159	36	11	7	44	1.69
1969728--1969820	48	1.9	48	91	0	150	38	2	9	49	1.48
1970132--1970188	20	2.6	22	72	16	55	45	0	5	49	1.24
1971784--1971852	33	2.1	33	83	5	86	31	1	36	30	1.67
1972227--1972277	19	2.6	20	87	3	68	45	5	15	33	1.71
1975800--1975868	33	2.1	33	83	5	86	31	1	36	30	1.67
1976243--1976293	19	2.6	20	87	3	68	45	5	15	33	1.71
1978697--1978769	31	2.4	31	77	8	80	46	8	15	30	1.74
1980732--1980811	40	2.0	40	90	0	124	28	22	23	25	1.99
1985623--1985754	41	3.2	41	86	1	165	34	12	20	33	1.89
1985623--1985801	82	2.2	81	79	5	180	33	12	18	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1985651--1985802	41	3.7	40	80	6	126	34	11	18	34	1.87
1987021--1987135	43	2.7	43	79	10	114	26	21	22	28	1.99
1987326--1987413	42	2.1	42	86	0	122	30	15	27	26	1.96
1996750--1996998	43	5.8	43	79	5	234	34	23	15	26	1.95
1996737--1997013	129	2.1	129	78	5	299	34	22	15	27	1.94
1999053--1999117	30	2.2	30	91	0	103	21	18	26	33	1.96
1999951--2000023	30	2.4	30	77	13	78	34	8	20	36	1.83
2000566--2000612	24	2.0	24	100	0	94	36	12	8	42	1.74
2006348--2006486	59	2.4	57	81	10	165	42	5	12	38	1.67
2016474--2016553	40	2.0	40	100	0	160	17	12	17	52	1.74
2019375--2019459	29	2.9	29	94	0	143	22	29	23	24	1.99
2019948--2020072	61	2.0	61	89	0	187	40	9	17	32	1.82
2021750--2021844	47	2.0	47	100	0	190	27	16	21	34	1.95
2022699--2022732	2	17.0	2	100	0	68	50	0	0	50	1.00
2025105--2025278	86	2.0	86	100	0	348	27	8	26	38	1.84
2031874--2032387	54	9.4	55	81	2	466	35	17	18	29	1.94
2031874--2032387	109	4.7	109	76	5	475	35	17	18	29	1.94
2031874--2032396	163	3.2	163	78	4	525	34	17	18	29	1.94
2040184--2040247	3	21.0	3	87	3	92	62	0	1	35	1.05
2040485--2040724	111	2.1	115	85	4	328	31	17	20	30	1.96
2040626--2041338	66	10.8	66	95	0	1261	31	17	20	30	1.95
2042504--2042554	22	2.3	23	86	3	68	3	17	0	78	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2042496--2042554	22	2.6	23	81	2	66	5	16	0	77	0.93
2055855--2055894	3	13.0	3	89	5	62	65	0	2	32	1.06
2063846--2063951	54	2.0	53	88	1	158	33	18	18	29	1.95
2064397--2064548	77	1.9	79	80	5	175	41	8	5	44	1.59
2065587--2065898	55	5.7	55	84	2	342	34	17	17	29	1.93
2068153--2068198	19	2.4	19	88	0	74	43	10	17	28	1.82
2068881--2069038	31	5.1	31	89	1	228	38	20	15	25	1.92
2088590--2088755	58	2.9	58	92	1	262	32	18	19	29	1.96
2090904--2090952	20	2.5	20	80	6	55	38	12	30	18	1.87
2095574--2095641	35	1.9	35	82	5	84	36	19	16	27	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21