genome.fa.s8353.2.7.7.80.10.50.1000.9.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: VEPZ01008353.1 Hibiscus syriacus cultivar Beakdansim tig00111088_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2583621

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

This is table  9  of  13  ( 1447 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)
1663686--1663910	64	3.5	64	82	7	244	28	19	19	32	1.96
1666314--1667650	84	16.2	82	78	5	1287	31	24	18	24	1.98
1666314--1667678	248	5.5	248	85	2	1670	31	24	18	24	1.98
1666314--1667650	661	2.0	661	86	2	1889	31	24	18	24	1.98
1668602--1668627	3	8.7	3	100	0	52	69	0	0	30	0.89
1672919--1673022	28	3.6	27	73	11	82	40	6	8	44	1.62
1673105--1673208	28	3.6	29	78	6	120	35	10	11	42	1.76
1673104--1673208	31	3.6	28	77	8	111	36	10	11	41	1.76
1673988--1674045	29	2.0	30	96	3	109	18	5	27	48	1.70
1682552--1682576	8	3.1	8	100	0	50	48	0	52	0	1.00
1684771--1684809	19	2.1	19	85	9	53	51	17	0	30	1.46
1687356--1687649	153	1.9	152	88	2	446	26	30	18	24	1.97
1698814--1698883	29	2.4	29	88	4	97	55	2	0	41	1.14
1698832--1698918	31	2.9	31	86	3	124	52	6	0	40	1.28
1699537--1699637	33	3.1	33	100	0	202	26	21	14	36	1.93
1700530--1700593	27	2.4	27	78	5	76	31	1	4	62	1.25
1705844--1705872	13	2.2	13	100	0	58	48	0	0	51	1.00
1706258--1706285	14	2.0	14	100	0	56	35	21	14	28	1.92
1706931--1707018	23	3.8	23	78	14	108	29	26	26	18	1.98
1711856--1711899	23	1.9	23	85	0	61	15	29	27	27	1.96
1713545--1713632	23	3.8	23	78	14	108	29	26	26	18	1.98
1716126--1716184	21	2.9	20	80	17	68	45	6	0	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716326--1716368	17	2.5	17	82	17	54	48	0	0	51	1.00
1719352--1719389	10	3.9	10	79	6	51	31	0	0	68	0.90
1719888--1719975	31	2.9	31	89	1	124	38	17	3	40	1.66
1725863--1725904	2	21.0	2	85	0	57	2	45	4	47	1.36
1725874--1725909	18	2.0	18	94	0	63	5	38	8	47	1.57
1726662--1726700	21	2.0	20	90	10	62	10	33	0	56	1.33
1730049--1730251	79	2.7	73	86	9	268	34	18	11	35	1.87
1760751--1760790	18	2.2	18	90	0	62	47	17	5	30	1.69
1768489--1768663	42	4.2	42	81	5	178	44	13	24	18	1.86
1768499--1768662	84	2.0	84	82	9	201	44	14	23	17	1.86
1779193--1779265	28	2.7	26	67	21	69	49	10	5	34	1.61
1780114--1780248	21	6.5	21	83	8	170	30	24	22	22	1.99
1780114--1780248	41	3.3	41	78	14	161	30	24	22	22	1.99
1780114--1780289	83	2.1	82	87	7	250	29	23	21	25	1.99
1780128--1780249	62	2.0	62	90	6	194	30	22	22	24	1.99
1780873--1780947	6	12.5	6	98	0	141	1	14	50	33	1.51
1781033--1781176	21	6.9	21	73	14	111	34	22	20	22	1.97
1781033--1781171	42	3.3	41	85	8	176	34	22	20	23	1.97
1781023--1781198	83	2.1	81	77	11	178	31	21	22	24	1.98
1781533--1781560	3	9.3	3	100	0	56	35	0	0	64	0.94
1785569--1785609	20	2.0	20	100	0	82	19	31	24	24	1.98
1791908--1791946	18	2.2	18	90	9	62	56	0	5	38	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1793055--1793135	29	2.8	30	88	5	121	27	0	41	30	1.56
1793316--1793417	50	2.0	50	96	0	186	27	26	17	28	1.98
1793366--1794313	133	7.1	133	94	0	1675	28	21	22	28	1.99
1793366--1794313	265	3.6	266	95	1	1677	28	21	22	28	1.99
1793366--1794313	398	2.4	398	96	0	1770	28	21	22	28	1.99
1795175--1795221	7	7.3	7	77	18	57	0	17	0	82	0.66
1795177--1795212	12	2.9	12	88	8	54	0	19	0	80	0.71
1795170--1795221	19	2.7	20	79	11	63	1	19	0	78	0.84
1795175--1795221	13	3.7	13	91	2	78	0	17	0	82	0.66
1807979--1808059	29	2.8	30	88	5	121	27	0	41	30	1.56
1808211--1808285	39	1.9	39	91	5	125	34	20	22	22	1.96
1808943--1808984	22	1.9	22	100	0	84	23	26	26	23	2.00
1815057--1815106	23	2.1	24	85	3	66	32	24	24	20	1.98
1815211--1815252	15	2.8	16	78	7	52	30	16	19	33	1.94
1817627--1817653	14	1.9	14	100	0	54	55	0	14	29	1.40
1819918--1819957	21	1.9	21	89	0	62	10	25	40	25	1.86
1827284--1827453	90	1.9	88	91	2	277	37	10	7	44	1.68
1833565--1833629	31	2.1	31	100	0	130	33	20	9	36	1.84
1835912--1835962	2	26.0	2	96	4	95	50	0	0	49	1.00
1845480--1845523	19	2.3	19	84	7	54	59	2	0	38	1.10
1846249--1846341	38	2.4	38	94	0	159	46	6	8	38	1.60
1853933--1853978	23	2.0	23	100	0	92	39	13	21	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1857550--1857580	12	2.6	12	100	0	62	67	0	25	6	1.14
1860930--1861073	75	1.9	75	84	2	191	42	18	16	22	1.89
1871283--1871311	15	1.9	15	100	0	58	34	13	0	51	1.42
1871302--1871332	10	3.1	10	95	0	53	19	25	0	54	1.44
1871703--1871778	34	2.2	34	92	0	125	21	15	36	26	1.93
1877238--1877274	14	2.6	14	95	0	65	24	37	37	0	1.56
1877980--1878010	3	10.3	3	92	0	53	67	3	0	29	1.06
1881385--1881535	60	2.5	60	78	9	148	42	5	22	29	1.77
1882762--1882835	38	1.9	38	83	0	94	44	33	5	16	1.70
1886457--1886543	7	12.4	7	75	0	57	40	35	2	21	1.66
1886455--1886541	28	2.7	34	71	23	96	41	34	2	21	1.66
1886464--1886539	28	2.7	28	97	0	143	42	32	2	22	1.67
1891194--1891225	16	2.0	16	100	0	64	37	25	6	31	1.81
1891584--1891626	21	2.1	21	86	4	61	60	20	0	18	1.36
1892115--1892186	31	2.3	31	92	0	117	41	16	4	37	1.68
1894081--1894126	21	2.2	21	100	0	92	36	36	4	21	1.74
1903817--1903857	20	2.0	20	90	0	64	56	0	7	36	1.27
1904331--1904462	32	4.1	31	70	13	97	40	27	9	21	1.85
1905026--1905162	42	3.3	42	89	2	204	45	21	10	22	1.81
1911074--1911105	12	2.7	12	100	0	64	65	0	6	28	1.16
1913570--1913612	20	2.2	19	91	4	68	25	18	20	34	1.96
1914968--1915104	43	3.3	42	81	7	136	23	15	27	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1914983--1915148	43	3.9	43	82	0	161	25	14	24	35	1.93
1914983--1915185	86	2.4	84	80	4	201	25	16	24	33	1.95
1915224--1915316	44	2.1	44	87	0	132	30	18	19	32	1.95
1915237--1915340	44	2.4	43	84	4	122	32	18	15	33	1.92
1915425--1915477	28	1.9	27	81	11	63	52	24	0	22	1.47
1915656--1915747	21	4.4	21	79	2	96	4	36	16	42	1.68
1921466--1921515	2	25.0	2	100	0	100	50	0	0	50	1.00
1922609--1922673	6	10.8	6	96	0	121	50	32	0	16	1.46
1927981--1928019	11	3.5	11	82	10	53	20	2	0	76	0.90
1927980--1928019	16	2.4	16	83	4	53	22	2	0	75	0.93
1928028--1928065	20	1.9	20	88	0	58	42	7	5	44	1.56
1928174--1928258	26	3.2	25	74	12	82	41	2	4	51	1.35
1928532--1928575	20	2.3	19	88	4	70	38	20	15	25	1.92
1929778--1929837	31	1.9	31	96	0	111	26	11	25	36	1.90
1941073--1941125	20	2.7	20	74	11	63	71	1	1	24	1.06
1941121--1941145	2	12.5	2	100	0	50	52	0	0	48	1.00
1941395--1941437	18	2.5	17	85	7	61	67	2	4	25	1.22
1942693--1943553	106	8.0	106	85	3	1066	24	18	22	34	1.96
1944256--1944379	36	3.4	36	80	2	149	39	13	20	25	1.90
1944271--1944364	37	2.6	36	84	3	125	39	15	22	22	1.92
1950276--1950356	17	4.8	17	70	13	51	71	1	12	14	1.20
1950850--1950874	2	12.5	2	100	0	50	52	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1950959--1950983	2	12.5	2	100	0	50	52	0	0	48	1.00
1951243--1951285	18	2.5	17	85	7	61	67	2	4	25	1.22
1951873--1951906	16	2.0	18	88	11	54	41	11	0	47	1.40
1956993--1957033	18	2.3	18	86	0	55	21	9	17	51	1.74
1958589--1958634	19	2.6	19	76	10	53	28	4	19	47	1.68
1965526--1965603	32	2.4	32	79	12	88	38	8	20	32	1.84
1965591--1965663	20	3.7	20	96	0	137	31	17	15	35	1.91
1966941--1966977	19	1.9	19	88	0	56	29	13	2	54	1.53
1970392--1970512	45	2.8	43	76	5	116	34	14	19	32	1.91
1971133--1971183	26	2.0	26	84	0	66	31	7	21	39	1.82

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