genome.fa.s8180.2.7.7.80.10.50.1000.10.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: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2670214

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

This is table  10  of  14  ( 1585 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)
1725789--1725924	24	5.8	23	72	20	95	48	0	1	49	1.15
1725817--1725901	6	15.3	6	75	22	80	51	0	0	48	1.00
1725813--1725901	45	1.9	47	88	8	139	51	0	0	48	1.00
1725823--1725932	39	3.0	38	75	22	119	50	0	1	48	1.11
1725789--1725963	51	3.4	52	73	15	157	50	1	1	46	1.19
1725816--1726061	35	7.9	31	71	18	90	48	1	4	45	1.31
1725815--1725963	70	2.1	71	82	13	175	51	0	2	46	1.17
1725923--1725969	24	1.9	25	82	4	60	55	4	2	38	1.31
1726115--1726193	36	2.2	36	90	0	122	44	7	3	44	1.50
1726172--1726222	15	3.3	15	71	15	50	50	3	3	41	1.39
1726204--1726245	22	2.0	21	90	9	68	52	7	4	35	1.50
1726281--1726384	20	5.1	22	74	14	71	42	6	7	43	1.59
1726274--1726358	37	2.3	38	80	11	97	41	4	8	45	1.55
1726324--1726391	11	6.2	11	71	19	52	39	5	7	47	1.56
1726300--1726347	17	2.8	17	87	6	62	41	4	6	47	1.48
1726533--1726578	7	6.6	7	82	0	56	15	0	36	47	1.45
1726602--1726631	15	1.9	16	93	6	53	40	3	3	53	1.34
1726604--1726647	20	2.2	20	88	4	63	40	9	4	45	1.56
1727009--1727206	13	15.3	13	67	22	89	41	4	5	47	1.47
1726943--1727115	77	2.2	77	92	2	285	42	6	3	47	1.45
1727089--1727191	28	3.6	27	79	11	91	42	4	6	45	1.52
1727009--1727206	15	13.1	15	69	17	90	41	4	5	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1727434--1727469	11	3.3	11	88	0	54	52	13	0	33	1.41
1737065--1737125	31	2.0	31	84	12	81	39	0	1	59	1.08
1737065--1737125	15	3.9	15	76	8	52	39	0	1	59	1.08
1737532--1737561	16	1.9	15	93	6	51	40	0	10	50	1.36
1739863--1739956	3	31.7	3	97	2	181	65	0	0	34	0.93
1741688--1741806	60	2.0	59	81	4	141	33	14	14	37	1.86
1742443--1742489	2	23.5	2	86	0	67	48	6	44	0	1.28
1742443--1742486	10	4.4	10	97	0	79	50	6	43	0	1.29
1745268--1745328	23	2.7	21	78	16	59	32	1	4	60	1.28
1751849--1751889	21	1.9	22	85	5	57	19	9	4	65	1.40
1752523--1752566	18	2.5	18	88	3	63	18	9	0	72	1.10
1752518--1752566	18	2.8	17	84	6	62	20	8	0	71	1.11
1755607--1755693	5	17.0	5	70	9	59	20	6	2	70	1.22
1755636--1755686	21	2.4	21	86	0	66	21	7	1	68	1.25
1755636--1755693	26	2.2	26	78	6	64	20	6	1	70	1.19
1758426--1758468	17	2.5	17	85	11	52	23	6	2	67	1.27
1759434--1759472	20	1.9	21	94	5	71	25	10	10	53	1.66
1759562--1759602	21	1.9	22	85	5	57	19	12	4	63	1.46
1760236--1760277	18	2.3	18	92	8	68	16	14	0	69	1.20
1761279--1761315	19	1.9	19	88	0	56	35	29	13	21	1.92
1761304--1761426	60	2.0	60	95	0	219	29	27	16	26	1.97
1761281--1761386	20	5.3	20	73	5	72	31	29	15	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1761401--1761489	20	4.5	19	80	5	52	31	22	20	25	1.98
1761304--1761489	60	3.1	60	82	4	189	30	25	17	26	1.97
1761458--1761559	41	2.5	41	91	0	168	37	26	15	20	1.93
1761480--1761554	21	3.6	21	68	10	64	40	26	14	18	1.90
1761615--1761712	21	4.7	21	80	7	110	42	24	14	18	1.87
1761822--1761869	6	8.5	6	93	2	66	29	52	16	2	1.56
1762098--1762206	19	5.4	19	80	13	110	31	27	5	35	1.80
1767543--1767630	23	3.9	23	77	15	103	29	26	19	25	1.98
1768276--1768377	42	2.4	42	83	3	134	30	30	13	25	1.94
1770608--1770821	117	1.8	118	80	7	256	50	7	16	25	1.72
1771358--1771397	20	2.0	21	85	14	57	37	15	5	42	1.68
1771357--1771401	20	2.2	20	80	11	56	40	13	4	42	1.64
1783713--1783796	23	3.7	23	77	13	68	36	23	15	23	1.93
1784352--1784403	19	2.5	20	81	9	61	25	30	17	26	1.97
1790471--1790503	16	1.9	17	88	11	50	36	18	6	39	1.75
1808498--1808537	13	3.2	12	89	7	53	80	2	2	15	0.93
1808498--1808537	6	6.3	6	88	8	53	80	2	2	15	0.93
1812595--1812718	54	2.3	55	84	2	162	23	30	22	23	1.99
1818486--1818545	23	2.9	20	87	9	77	21	33	26	18	1.96
1820482--1820532	9	6.2	8	76	19	52	13	0	27	58	1.36
1820484--1820527	17	2.6	17	85	7	63	13	0	29	56	1.38
1821132--1821338	76	2.8	76	89	1	301	25	31	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1826518--1826568	20	2.5	21	84	6	61	37	7	21	33	1.82
1827032--1827071	21	1.9	21	90	10	64	25	5	12	57	1.55
1827248--1827303	23	2.4	23	90	0	85	26	19	23	30	1.98
1842570--1842672	40	2.6	40	87	6	147	42	9	16	31	1.80
1842716--1842755	14	2.9	14	96	0	71	12	12	17	57	1.65
1842702--1842768	24	2.7	24	81	11	73	16	14	16	52	1.75
1850148--1850190	20	2.2	20	91	4	70	27	13	4	53	1.60
1854801--1854831	2	15.5	2	100	0	62	48	0	0	51	1.00
1856495--1856850	135	2.6	133	82	6	399	43	14	13	28	1.83
1857190--1857253	29	2.2	29	83	10	87	62	4	4	28	1.35
1857205--1857256	15	3.6	14	74	25	54	69	3	1	25	1.16
1860284--1860339	3	19.3	3	92	7	98	33	0	0	66	0.92
1864378--1864422	20	2.3	20	88	3	74	20	6	4	68	1.29
1864377--1864423	19	2.3	21	85	10	71	21	6	4	68	1.30
1864695--1864763	26	2.7	24	79	16	68	18	2	7	71	1.23
1877044--1877083	21	1.9	21	89	0	62	10	25	40	25	1.86
1884707--1884746	21	1.9	21	89	0	62	82	2	15	0	0.77
1884787--1884833	7	6.6	7	78	11	51	78	0	17	4	0.90
1884788--1884839	12	3.8	13	82	12	52	78	0	17	3	0.89
1884790--1884838	21	2.4	21	84	15	68	77	0	18	4	0.92
1885953--1886540	106	5.8	103	84	7	718	34	25	18	21	1.96
1885953--1886539	205	2.9	205	89	1	880	34	25	18	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1885953--1886540	99	5.8	99	84	6	680	34	25	18	21	1.96
1888084--1888127	20	2.2	20	92	4	72	20	6	4	68	1.31
1889234--1889359	51	2.5	51	92	1	189	36	8	8	46	1.66
1889260--1889359	51	2.0	51	100	0	200	35	10	9	46	1.69
1889850--1889876	13	2.1	13	100	0	54	51	7	22	18	1.70
1890295--1890327	15	2.2	15	94	0	57	6	15	69	9	1.34
1896740--1896786	22	2.2	22	84	3	60	14	17	2	65	1.36
1899492--1899540	21	2.4	21	82	3	55	44	0	2	53	1.12
1900777--1901055	143	2.0	143	96	0	513	31	20	10	38	1.86
1904473--1904506	4	8.5	4	93	0	59	26	0	73	0	0.83
1910109--1910169	25	2.4	25	97	0	113	36	6	0	57	1.25
1917912--1917982	27	2.5	30	86	6	94	26	15	22	35	1.94
1918066--1918454	183	2.1	183	92	3	640	46	8	3	41	1.50
1919147--1919181	16	2.2	16	100	0	70	28	40	5	25	1.78
1919704--1919740	18	2.1	18	89	0	56	56	0	13	29	1.37
1921115--1921166	22	2.4	22	96	0	95	36	26	21	15	1.93
1921144--1921299	31	5.0	31	89	1	206	39	21	16	21	1.92
1928811--1928835	3	8.3	3	100	0	50	68	0	0	32	0.90
1929421--1929461	20	2.0	21	86	9	59	53	0	9	36	1.34
1938280--1938354	39	1.9	39	83	5	98	49	8	5	37	1.55
1946918--1946994	32	2.4	33	82	8	95	19	7	6	66	1.40
1946956--1946999	22	2.0	22	82	8	54	18	11	2	68	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1947044--1947100	21	2.7	21	75	5	53	68	1	7	22	1.23
1947044--1947100	10	5.5	10	77	8	51	68	1	7	22	1.23
1947134--1947172	20	2.0	20	84	0	51	35	5	2	56	1.35
1948843--1948892	13	3.8	13	76	5	55	58	0	0	42	0.98
1951359--1951387	2	14.5	2	100	0	58	51	0	0	48	1.00
1958840--1959057	103	2.1	103	94	0	382	25	12	23	38	1.90
1959098--1959141	23	1.9	23	90	0	70	27	20	20	31	1.97
1964658--1964875	103	2.1	103	97	0	409	25	13	23	36	1.92
1965270--1965300	4	7.8	4	100	0	62	25	0	22	51	1.48
1966123--1966331	80	2.6	81	84	7	273	42	23	13	19	1.87

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