genome.fa.s7860.2.7.7.80.10.50.1000.11.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: VEPZ01007860.1 Hibiscus syriacus cultivar Beakdansim tig00110223_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2941097

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  11  of  16  ( 1828 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)
1772350--1772409	30	2.0	31	86	3	86	31	8	6	53	1.57
1772916--1772955	22	1.9	20	90	10	62	27	10	40	22	1.86
1774068--1774149	18	4.7	18	73	21	75	73	4	17	4	1.19
1774278--1774316	15	2.6	15	100	0	78	12	25	0	61	1.31
1775125--1775167	22	2.0	22	86	9	61	55	9	16	18	1.67
1776582--1776641	30	2.0	31	83	3	77	30	8	8	53	1.60
1777478--1777535	21	2.8	21	92	2	91	39	12	6	41	1.69
1784800--1784829	3	10.3	3	92	7	53	66	0	0	33	0.92
1784804--1784834	14	2.2	14	94	0	53	61	0	3	35	1.12
1785675--1785715	21	2.0	21	85	0	55	31	21	17	29	1.96
1787111--1787206	30	3.2	30	96	0	165	28	12	17	41	1.86
1791435--1791497	20	2.9	23	81	9	78	26	23	7	41	1.82
1791438--1791497	23	2.8	21	82	7	68	26	25	6	41	1.80
1792915--1792989	37	2.0	37	100	0	150	21	10	25	42	1.85
1793875--1793928	21	2.5	22	73	8	58	40	16	11	31	1.84
1804056--1804153	26	3.6	27	80	8	101	37	25	3	33	1.72
1805727--1805760	10	3.4	10	91	0	50	70	29	0	0	0.87
1805716--1805762	17	2.9	16	81	9	60	72	27	0	0	0.85
1805716--1805762	15	3.3	15	79	5	53	72	27	0	0	0.85
1810978--1811007	10	3.0	10	90	0	51	0	13	16	70	1.18
1811245--1811387	72	2.0	71	89	6	218	30	17	20	31	1.96
1814118--1814181	21	3.0	21	77	13	67	32	21	18	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1814126--1814218	21	4.2	22	72	18	70	32	18	21	27	1.97
1819719--1819748	10	3.0	10	100	0	60	0	10	20	70	1.16
1819900--1819947	19	2.5	19	93	0	78	29	22	27	20	1.99
1819952--1820093	72	2.0	71	84	6	189	28	14	21	35	1.93
1822181--1822215	16	2.2	16	100	0	70	31	22	28	17	1.96
1825212--1825298	45	1.9	45	92	0	147	14	32	12	40	1.84
1828032--1828092	26	2.3	26	94	0	104	22	26	24	26	2.00
1830010--1830046	17	2.2	17	90	9	58	51	8	0	40	1.32
1835340--1835454	60	1.9	60	84	7	153	40	16	12	31	1.85
1838297--1838343	24	2.0	24	91	0	76	46	4	42	6	1.48
1839718--1839777	31	2.0	30	83	6	77	43	11	13	31	1.80
1841441--1841468	14	2.0	14	100	0	56	50	0	0	50	1.00
1845666--1845970	65	4.7	65	86	3	393	33	22	15	29	1.94
1845666--1845972	127	2.4	129	86	2	420	32	22	14	29	1.94
1849392--1849424	2	16.5	2	93	0	57	45	0	0	54	0.99
1849934--1850177	29	8.4	29	76	2	222	22	25	18	32	1.97
1849934--1850177	87	2.8	87	79	6	271	22	25	18	32	1.97
1851277--1851304	2	14.0	2	100	0	56	50	0	0	50	1.00
1858876--1858916	10	4.1	10	93	0	73	60	21	9	7	1.52
1859177--1859232	14	4.1	14	73	21	57	53	14	14	17	1.73
1873203--1873244	13	3.1	13	80	12	57	78	2	16	2	0.96
1873324--1873461	69	2.0	69	87	8	201	39	20	12	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1874386--1874500	32	3.6	31	80	4	113	28	14	20	35	1.93
1875043--1875158	43	2.7	43	94	0	205	30	33	18	18	1.94
1875207--1875453	106	2.3	106	90	2	372	33	22	19	24	1.97
1875600--1875786	102	1.8	102	83	4	252	27	18	12	40	1.87
1875780--1875814	15	2.3	15	90	0	52	20	20	20	40	1.92
1875959--1876046	35	2.4	36	90	9	135	42	18	9	30	1.81
1877434--1877500	27	2.4	27	82	7	73	17	4	2	74	1.11
1880468--1880505	20	1.9	20	94	0	67	39	10	26	23	1.87
1880468--1880511	20	2.3	19	88	7	63	40	9	27	22	1.84
1883791--1883824	2	17.0	2	100	0	68	50	0	0	50	1.00
1884585--1884655	29	2.7	25	72	19	72	64	11	2	21	1.38
1884601--1884678	29	2.7	29	91	0	120	60	12	2	24	1.45
1884840--1884878	15	2.5	16	87	4	53	20	28	25	25	1.99
1887228--1887311	30	2.8	30	82	7	100	36	15	7	40	1.75
1889229--1889806	49	12.0	49	89	3	807	25	18	15	39	1.90
1889635--1889806	88	2.0	88	97	0	326	25	19	16	38	1.92
1890164--1890212	19	2.6	19	96	0	89	20	28	16	34	1.94
1891315--1891351	20	1.9	19	89	10	58	45	10	24	18	1.81
1891500--1891530	15	2.1	15	93	0	53	54	0	0	45	0.99
1898242--1898294	21	2.5	21	75	6	54	22	24	16	35	1.95
1898284--1898335	21	2.5	21	81	3	61	38	19	25	17	1.93
1898324--1898438	20	5.7	20	84	6	133	32	26	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1898322--1898458	41	3.4	40	83	6	177	34	25	17	22	1.96
1898912--1898955	20	2.2	20	87	0	61	11	18	20	50	1.77
1900729--1900795	20	3.4	20	77	2	64	38	22	22	16	1.92
1900768--1900833	33	2.0	34	93	3	116	46	21	18	13	1.83
1900768--1900850	19	4.6	19	74	18	88	45	20	19	14	1.85
1900862--1900920	14	3.9	14	76	20	64	10	16	23	49	1.77
1900857--1900939	33	2.5	33	98	0	157	10	18	21	49	1.77
1900878--1900994	19	6.3	19	78	12	109	14	21	21	42	1.88
1900920--1900994	20	3.8	19	82	5	87	16	24	21	38	1.92
1900941--1901020	20	4.1	19	79	7	70	22	18	25	33	1.97
1901357--1901448	42	2.2	42	84	5	125	23	39	15	21	1.92
1902857--1902895	14	2.8	14	84	0	51	35	0	17	46	1.49
1905385--1905409	12	2.1	12	100	0	50	0	28	0	72	0.86
1906379--1906493	20	5.7	20	79	6	115	23	18	26	32	1.97
1906359--1906494	41	3.3	41	76	10	143	23	17	25	33	1.96
1906482--1906533	20	2.5	20	81	3	59	19	23	19	38	1.93
1906359--1906513	41	3.8	41	73	5	118	23	18	24	33	1.97
1906523--1906575	21	2.5	22	81	6	74	33	18	26	20	1.96
1917573--1917623	27	2.0	25	84	7	66	45	1	0	52	1.12
1917693--1917767	31	2.4	31	81	0	96	45	1	6	46	1.37
1919745--1919794	3	16.7	3	91	8	84	66	0	0	34	0.92
1921470--1921579	31	3.5	31	94	0	193	17	20	22	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1921472--1921592	62	2.0	62	90	3	190	19	20	22	37	1.95
1922854--1922932	7	10.6	7	75	15	54	41	1	0	56	1.07
1923254--1923308	24	2.2	24	77	20	60	27	9	12	50	1.70
1924071--1924121	25	2.1	24	82	7	59	60	3	5	29	1.38
1937633--1937664	17	1.9	16	93	6	55	37	31	18	12	1.88
1937632--1937672	16	2.5	17	84	4	57	39	29	19	12	1.88
1939493--1939521	6	5.0	6	91	8	51	0	13	0	86	0.58
1940011--1940041	2	15.5	2	100	0	62	48	0	51	0	1.00
1960881--1960931	18	2.9	17	85	5	57	66	3	5	23	1.30
1963459--1963584	20	5.7	20	71	20	90	20	23	11	43	1.85
1963444--1963591	46	3.2	46	89	0	233	20	22	12	43	1.86
1963736--1963793	26	2.2	26	100	0	116	43	22	6	27	1.79
1966071--1966115	16	2.9	15	81	18	56	26	0	2	71	0.98
1967966--1968040	3	25.0	3	86	0	87	33	4	33	29	1.76
1968192--1968248	26	2.2	27	84	9	82	26	5	1	66	1.22
1976205--1976343	65	2.2	64	80	8	149	30	22	17	28	1.97
1984669--1984876	65	3.2	63	77	12	190	32	24	16	27	1.96
1986961--1987010	21	2.4	21	93	0	82	14	16	34	36	1.88
1989077--1989302	2	115.0	2	77	3	199	41	0	58	0	0.98
1990391--1990437	17	2.7	18	77	9	53	44	8	0	46	1.33
1990251--1990514	93	2.9	92	88	2	370	40	12	3	43	1.59
1996668--1996696	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1997125--1997168	15	2.7	17	79	13	56	38	15	6	38	1.75
1997289--1997387	13	7.7	12	76	15	65	40	1	1	57	1.12
1997289--1997349	26	2.2	28	86	11	83	42	0	1	55	1.09
2001321--2001364	20	2.2	20	87	0	61	34	2	0	63	1.07
2003027--2003082	25	2.3	24	78	6	58	80	1	3	14	0.93
2003050--2003119	22	3.0	23	71	8	61	72	4	5	17	1.20
2006595--2006619	13	1.9	13	100	0	50	40	24	0	36	1.55
2007908--2007987	41	2.0	41	85	5	108	31	23	17	27	1.97
2017822--2017958	60	2.3	60	85	7	172	35	24	5	35	1.79
2024082--2024136	25	2.2	25	80	6	67	34	5	0	60	1.20

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16