genome.fa.s8122.2.7.7.80.10.50.1000.6.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: VEPZ01008122.1 Hibiscus syriacus cultivar Beakdansim tig00110676_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2511854

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 956 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)
1592354--1592576	85	2.6	86	81	7	233	24	15	8	51	1.70
1592396--1592600	86	2.4	84	82	8	225	24	16	7	51	1.70
1592354--1592612	43	6.0	43	74	10	165	24	15	7	51	1.70
1593041--1593092	21	2.5	21	81	9	63	34	1	21	42	1.64
1594407--1594481	6	12.5	6	88	0	96	8	12	46	33	1.70
1594430--1594487	12	4.8	12	82	0	80	10	10	44	34	1.73
1594412--1594487	24	3.2	24	96	0	134	10	10	44	34	1.73
1594599--1594649	21	2.4	21	100	0	102	33	29	19	17	1.95
1596199--1596238	19	2.1	20	86	9	57	37	0	0	62	0.95
1599637--1599678	12	3.6	12	84	9	52	76	2	9	11	1.12
1601591--1601709	60	2.0	60	83	3	150	36	14	16	32	1.89
1611288--1611336	24	2.0	24	100	0	98	40	20	12	26	1.87
1613750--1613933	92	2.0	92	97	0	350	30	19	18	31	1.95
1615284--1615328	20	2.2	20	100	0	90	20	4	22	53	1.63
1622023--1622144	60	2.1	59	85	4	165	31	15	18	35	1.92
1624600--1624637	17	2.2	17	90	0	58	13	21	44	21	1.85
1624637--1624726	9	9.4	9	77	11	81	27	27	27	16	1.97
1624640--1624706	19	3.5	19	83	4	91	26	29	26	16	1.97
1624644--1624726	38	2.2	39	85	10	109	28	27	26	16	1.97
1629459--1629494	2	18.0	2	100	0	72	50	0	0	50	1.00
1631599--1631783	29	6.4	29	73	13	134	41	6	1	50	1.35
1631660--1631787	59	2.3	55	82	10	143	42	10	0	46	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1634530--1634569	18	2.2	18	86	0	53	35	5	42	17	1.71
1635722--1635760	13	3.0	13	92	0	60	12	15	15	56	1.68
1635722--1635768	13	3.8	12	86	8	58	14	17	17	51	1.77
1636346--1636443	30	3.3	30	86	0	133	26	21	17	34	1.95
1636346--1636459	30	3.8	30	79	9	90	26	21	16	35	1.94
1636622--1636711	26	3.3	26	66	19	67	27	4	10	57	1.50
1636606--1636714	55	2.0	55	96	0	200	31	4	10	54	1.54
1638216--1638259	23	1.9	23	95	0	79	20	27	22	29	1.99
1638865--1638965	30	3.4	30	95	0	175	25	21	18	33	1.97
1649730--1649776	21	2.2	22	88	11	71	40	4	0	55	1.19
1654533--1654601	2	34.5	2	91	0	111	50	4	0	44	1.21
1654689--1654722	9	3.7	9	88	7	50	73	0	0	26	0.83
1654826--1654866	3	13.7	3	100	0	82	68	0	0	31	0.90
1662915--1662952	16	2.3	17	81	9	51	23	5	2	68	1.23
1689946--1690162	42	5.2	42	96	1	375	20	19	25	33	1.97
1689946--1690164	83	2.6	84	93	2	379	20	20	25	33	1.97
1691026--1691093	19	3.4	19	73	15	73	30	20	22	26	1.98
1691036--1691282	42	5.9	42	87	2	356	28	23	24	22	1.99
1694461--1694546	33	2.6	33	90	0	145	39	29	24	6	1.81
1705526--1705626	24	4.2	24	94	0	175	12	32	4	49	1.62
1718437--1718612	57	3.1	57	90	0	280	35	19	38	7	1.80
1726791--1727364	287	2.0	287	99	0	1139	37	18	22	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728368--1728408	21	2.0	21	85	4	57	43	0	39	17	1.49
1731490--1731530	21	2.0	21	85	4	57	43	0	39	17	1.49
1734612--1734652	21	2.0	21	85	4	57	43	0	39	17	1.49
1742625--1742678	7	7.7	7	100	0	108	0	44	0	55	0.99
1745950--1745981	16	2.0	17	88	11	50	40	6	3	50	1.43
1747258--1747317	21	2.9	21	84	0	84	30	18	26	25	1.98
1750748--1750794	2	23.5	2	100	0	94	51	0	0	48	1.00
1750947--1750972	2	13.0	2	100	0	52	50	0	0	50	1.00
1757859--1757899	20	2.0	20	100	0	82	19	39	19	21	1.93
1764715--1764793	31	2.6	30	82	11	90	59	6	5	29	1.43
1768136--1768204	29	2.4	29	95	0	120	33	5	18	42	1.75
1768993--1769044	26	2.0	26	100	0	104	23	23	11	42	1.86
1769652--1769703	24	2.2	24	82	0	59	11	19	19	50	1.77
1770275--1770547	139	2.0	139	100	0	546	33	9	8	48	1.67
1781489--1781570	29	2.8	30	76	10	80	47	1	1	50	1.16
1781503--1781550	14	3.4	14	82	5	60	39	2	0	58	1.10
1781512--1781556	15	3.1	14	81	9	54	42	0	2	55	1.12
1781511--1781551	15	2.9	14	82	7	55	41	0	0	58	0.98
1781709--1781778	24	2.9	24	81	10	81	47	1	0	51	1.09
1782045--1782111	33	2.0	33	100	0	134	38	20	10	29	1.86
1787734--1787771	13	2.8	13	96	4	67	52	0	0	47	1.00
1789317--1789357	16	2.5	17	80	11	50	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1798338--1798805	234	2.0	232	96	2	857	47	13	10	29	1.75
1802744--1803398	180	3.6	182	82	6	764	17	29	13	39	1.88
1803489--1803617	66	2.0	66	93	0	222	15	20	19	44	1.87
1806451--1806507	26	2.2	26	100	0	114	40	14	21	24	1.90
1810270--1810345	40	1.9	40	86	10	111	17	27	17	38	1.91
1810973--1811030	14	4.3	14	72	14	50	43	1	6	48	1.40
1818457--1818481	12	2.1	12	100	0	50	52	0	0	48	1.00
1824629--1824688	31	1.9	31	96	0	111	43	11	20	25	1.85
1825706--1825753	24	2.2	22	85	14	64	35	18	22	22	1.96
1825725--1825763	20	2.0	20	84	0	51	38	25	20	15	1.92
1829746--1829784	20	2.0	20	84	0	51	38	20	20	20	1.94
1841698--1842029	166	2.0	164	94	4	580	26	21	24	28	1.99
1845963--1846024	26	2.4	26	94	5	108	48	8	12	30	1.70
1849976--1850228	127	2.0	126	97	2	481	38	8	9	43	1.68
1863318--1863454	60	2.3	60	83	5	161	30	16	16	35	1.92
1870632--1870742	43	2.6	43	100	0	222	39	8	22	29	1.83
1874819--1874859	20	1.9	21	85	14	57	58	0	7	34	1.26
1880988--1881026	15	2.5	16	87	4	53	53	0	2	43	1.14
1881842--1881878	19	2.0	19	89	5	58	40	0	0	59	0.97
1882577--1882728	66	2.3	67	85	3	209	40	16	13	30	1.86
1882773--1882821	23	2.1	23	100	0	98	24	18	16	40	1.90
1883075--1883115	22	1.9	21	90	5	64	70	4	0	24	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1884139--1884179	21	2.0	21	90	4	66	60	0	0	39	0.96
1885484--1885510	12	2.2	12	100	0	54	33	0	25	40	1.56
1891022--1891185	83	2.0	82	85	3	224	33	8	7	50	1.60
1910829--1910878	22	2.3	22	92	0	82	16	44	12	28	1.83
1926638--1926700	22	2.8	22	78	7	65	23	34	23	17	1.96
1929119--1929159	21	2.0	21	85	0	55	29	29	24	17	1.97
1929630--1929690	2	30.5	2	93	0	104	54	0	0	45	1.00
1930463--1930558	32	3.0	32	79	14	126	29	17	18	34	1.94
1930550--1930642	30	3.1	30	92	1	143	20	21	27	30	1.98
1933556--1933600	21	2.1	21	87	0	63	31	28	24	15	1.96
1934073--1934105	2	16.5	2	100	0	66	51	0	0	48	1.00
1934877--1934973	32	3.1	32	78	14	128	28	17	18	35	1.94
1934877--1934976	31	3.2	31	81	9	123	29	19	18	34	1.95
1934964--1935057	30	3.1	30	90	3	136	20	21	27	30	1.98
1937647--1937717	21	3.5	20	76	10	65	26	29	19	23	1.98
1937660--1937721	21	3.0	21	85	0	88	24	27	20	27	1.99
1939416--1939508	27	3.4	27	100	0	186	36	18	15	30	1.91
1950472--1950537	2	33.0	2	100	0	132	50	0	0	50	1.00
1960028--1960057	2	15.0	2	100	0	60	50	0	0	50	1.00
1968789--1968814	3	8.7	3	100	0	52	34	0	0	65	0.93
1968814--1968845	15	2.1	16	94	5	57	0	0	28	71	0.86
1969830--1969969	41	3.6	41	66	21	113	32	19	15	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1972342--1972420	31	2.5	31	80	15	83	40	1	1	56	1.15
1972352--1972408	15	3.9	15	72	9	55	38	0	1	59	1.08
1972539--1972577	20	1.9	21	89	5	62	53	7	2	35	1.43
1972846--1972966	49	2.4	49	79	4	127	18	32	28	20	1.96
1973078--1973117	20	2.0	20	90	4	64	37	20	0	42	1.52
1975237--1975267	9	3.4	9	95	0	53	32	25	35	6	1.82
1975398--1975471	25	3.0	24	68	20	62	27	6	2	63	1.33
1979160--1979192	2	16.5	2	93	0	57	51	3	0	45	1.16
1990669--1990724	2	28.0	2	100	0	112	50	0	0	50	1.00
2021617--2021846	120	1.9	122	86	3	331	42	11	9	36	1.73

Tables:   1   2   3   4   5   6   7   8