genome.fa.s8025.2.7.7.80.10.50.1000.9.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: VEPZ01008025.1 Hibiscus syriacus cultivar Beakdansim tig00110500_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2744542

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

This is table  9  of  12  ( 1393 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)
1881814--1881875	23	2.7	23	82	0	70	19	29	22	29	1.98
1882163--1882194	6	5.5	6	96	3	57	34	0	15	50	1.45
1882163--1882202	18	2.3	18	86	4	55	32	0	15	52	1.43
1885106--1885148	21	2.0	21	82	13	52	23	11	2	62	1.40
1886639--1886676	20	2.0	20	94	5	69	78	0	13	7	0.94
1886670--1886755	5	16.8	5	80	12	52	75	0	23	1	0.87
1886671--1886754	4	20.8	4	77	13	59	75	0	23	1	0.88
1886651--1886755	41	2.5	40	80	20	110	75	0	21	2	0.94
1889783--1889816	17	2.0	17	88	0	50	73	2	2	20	1.09
1890949--1890975	10	2.7	10	100	0	54	14	0	7	77	0.97
1891728--1891752	12	2.1	12	100	0	50	48	16	28	8	1.74
1900114--1900164	23	2.2	23	89	6	77	33	31	3	31	1.76
1900136--1900178	16	2.7	16	88	0	59	32	27	6	32	1.84
1901024--1901053	10	3.0	10	90	0	51	56	13	0	30	1.37
1905630--1905772	44	3.2	44	86	0	214	30	23	15	30	1.95
1905630--1905793	44	3.7	44	82	3	179	32	23	16	28	1.96
1905906--1906004	44	2.2	44	83	0	126	24	27	17	31	1.97
1905767--1906048	132	2.1	127	79	9	312	23	24	17	34	1.96
1911132--1911255	64	1.9	64	95	0	221	37	18	14	29	1.91
1917671--1917756	29	3.0	29	94	0	154	44	29	12	13	1.81
1921378--1921454	21	3.9	20	72	14	70	24	25	23	25	2.00
1923561--1923635	30	2.5	29	85	8	80	30	17	9	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1924457--1924531	11	6.7	11	75	11	55	2	13	2	81	0.91
1924457--1924531	19	3.9	19	79	8	80	2	13	2	81	0.91
1927391--1927506	38	3.1	38	85	7	164	24	27	21	26	1.99
1927642--1927706	33	2.0	33	96	0	121	27	15	13	43	1.85
1928804--1928867	30	2.2	28	86	8	83	34	25	6	34	1.81
1929048--1929400	175	2.0	175	98	0	688	40	20	7	30	1.81
1929993--1930057	30	2.2	31	83	8	89	33	20	7	38	1.81
1934655--1934733	20	4.0	20	93	0	131	31	36	13	17	1.89
1934664--1934702	12	3.6	12	74	25	50	33	41	10	15	1.81
1934753--1934842	45	2.0	46	91	2	146	28	26	17	26	1.98
1940532--1940635	24	4.5	24	77	14	112	23	25	21	30	1.99
1943327--1943365	20	2.0	20	89	0	60	30	30	17	20	1.96
1944816--1944855	3	13.3	3	84	10	55	30	0	0	70	0.88
1944805--1944855	24	2.1	25	88	3	77	31	0	1	66	1.03
1945656--1945703	3	14.3	3	91	8	51	29	0	0	70	0.87
1945658--1945712	4	15.5	4	88	7	52	27	1	0	70	0.97
1945823--1945852	13	2.3	13	94	0	51	30	0	0	70	0.88
1946682--1946721	21	2.0	20	85	5	53	7	12	2	77	1.07
1946682--1946721	16	2.4	16	84	15	55	7	12	2	77	1.07
1948001--1948226	103	2.2	103	94	1	391	36	23	13	26	1.92
1952968--1953046	23	3.4	22	82	6	77	36	22	17	22	1.95
1953052--1953269	103	2.1	103	96	0	400	36	23	14	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1954281--1954334	2	27.0	2	100	0	108	50	0	0	50	1.00
1954746--1954788	22	2.0	22	90	0	68	9	25	37	27	1.87
1958176--1958558	124	3.1	122	88	3	545	31	23	17	27	1.97
1958821--1959224	36	11.2	36	80	11	398	26	19	13	40	1.89
1958821--1959224	72	5.6	72	78	11	441	26	19	13	40	1.89
1958894--1959152	138	1.8	139	84	5	351	28	18	13	40	1.88
1959136--1959194	21	3.1	21	63	27	58	25	18	13	42	1.87
1958794--1959395	252	2.4	241	79	11	625	26	19	13	40	1.89
1959122--1959460	173	1.9	176	89	4	535	26	19	13	40	1.89
1959239--1959395	36	4.4	36	82	9	196	26	19	13	40	1.89
1959344--1959491	67	2.2	66	87	1	215	30	18	11	39	1.86
1959491--1959745	83	3.1	82	84	2	330	32	26	18	23	1.97
1960002--1960038	3	12.7	3	88	5	58	32	0	0	67	0.91
1960842--1960879	20	1.9	20	94	0	67	23	2	0	73	0.95
1960833--1960887	28	2.0	28	82	3	67	25	3	0	70	1.03
1964251--1964295	19	2.4	19	96	0	81	51	4	22	22	1.66
1965652--1965775	66	1.9	66	86	3	178	19	16	23	40	1.91
1967550--1967586	18	2.1	18	89	0	56	35	8	24	32	1.85
1970932--1970977	24	2.0	24	87	8	69	13	8	17	60	1.56
1976893--1976986	49	1.9	48	95	2	170	36	13	25	24	1.93
1991498--1992776	134	9.5	134	82	3	1405	29	16	24	30	1.96
1991498--1992776	402	3.2	400	84	3	1615	29	16	24	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2000034--2000059	2	13.0	2	100	0	52	50	0	0	50	1.00
2000226--2000280	2	27.5	2	96	0	101	47	0	1	50	1.11
2007439--2007499	20	2.9	20	85	7	59	24	32	26	16	1.96
2009499--2009532	17	2.0	17	88	0	50	14	2	29	52	1.56
2016134--2016186	27	2.0	27	88	0	79	30	9	22	37	1.86
2016567--2016613	24	2.0	24	82	0	58	21	19	17	42	1.89
2020131--2020191	27	2.3	27	97	0	113	29	11	22	36	1.90
2020537--2020578	12	3.5	12	83	0	57	16	16	14	52	1.75
2020536--2020633	24	4.1	24	75	10	92	19	16	15	48	1.80
2026270--2026335	9	7.2	9	73	21	57	31	1	3	63	1.19
2026254--2026332	25	3.3	23	79	13	81	32	2	2	62	1.22
2030455--2030634	95	1.9	94	86	5	256	31	18	17	32	1.94
2031987--2032345	36	10.1	36	79	8	326	25	20	13	41	1.88
2032245--2032352	37	2.9	37	95	0	189	27	19	12	40	1.87
2032341--2032425	31	2.8	29	74	12	80	35	21	8	35	1.83
2032361--2032425	31	2.1	31	85	0	85	36	20	7	35	1.81
2034114--2034179	9	7.2	9	75	21	66	31	1	1	65	1.11
2034098--2034173	25	3.2	24	78	17	88	31	2	1	64	1.15
2039827--2039918	36	2.5	36	87	1	130	28	22	9	39	1.86
2039894--2039943	21	2.4	21	93	0	82	28	22	6	44	1.76
2039858--2039979	57	2.1	57	86	0	163	26	22	9	41	1.84
2039836--2040204	102	3.7	99	81	8	394	26	19	12	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2040023--2040102	37	2.2	36	81	2	97	28	21	13	36	1.92
2040115--2040403	36	8.1	36	77	11	265	24	19	13	42	1.87
2040023--2040403	174	2.2	175	86	4	511	25	19	13	41	1.88
2040115--2040403	72	4.1	72	76	10	299	24	19	13	42	1.87
2040289--2040410	37	3.3	37	81	3	140	24	18	13	43	1.86
2040399--2040483	31	2.8	31	85	1	109	34	22	8	35	1.84
2042019--2042071	25	2.2	23	81	15	63	20	5	0	73	1.03
2042087--2042159	25	3.1	24	77	18	82	31	2	1	64	1.16
2042091--2042159	14	5.1	14	71	23	51	31	2	1	63	1.18
2044032--2044113	37	2.2	37	91	0	128	36	15	17	30	1.91
2045277--2045318	15	2.8	15	100	0	84	33	23	14	28	1.94
2044985--2045544	196	2.8	196	87	4	769	30	17	19	32	1.95
2049488--2049572	34	2.5	34	98	0	161	40	0	0	60	0.97
2049565--2049602	20	1.9	20	89	10	60	18	7	31	42	1.79
2050696--2050829	20	6.7	20	87	0	178	24	26	23	25	2.00
2050696--2050829	60	2.2	60	89	0	205	24	26	23	25	2.00
2051003--2051045	22	2.0	22	86	9	61	25	39	13	20	1.90
2051435--2051545	20	5.7	20	86	3	109	15	16	22	45	1.84
2051443--2051538	20	4.8	20	88	1	113	13	17	22	45	1.84
2053267--2053316	18	2.8	18	100	0	100	32	20	6	42	1.76
2053464--2053511	20	2.4	20	92	0	78	33	27	20	18	1.96
2053554--2053609	20	2.8	20	94	0	94	17	16	25	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2053560--2053620	20	3.2	19	88	4	61	18	16	24	40	1.90
2054112--2054153	21	2.2	19	87	12	59	21	35	19	23	1.96
2054135--2054216	42	1.9	43	82	2	103	21	35	18	24	1.96
2055621--2055682	14	4.3	14	73	6	52	38	1	14	45	1.55
2055781--2055833	20	2.7	20	81	0	61	47	26	15	11	1.79
2055877--2056101	20	11.9	20	74	14	181	27	19	20	32	1.97
2055837--2056019	74	2.5	74	87	0	240	26	19	20	33	1.96
2055843--2055979	34	3.9	34	76	12	123	24	20	20	35	1.96
2055877--2056101	94	2.4	94	83	4	294	27	19	20	32	1.97
2056072--2056341	140	1.9	140	96	0	504	42	14	13	29	1.84

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