genome.fa.s9610.2.7.7.80.10.50.1000.9.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2160 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)
1681159--1681199	20	2.1	20	90	4	66	17	12	12	58	1.63
1684871--1684901	2	15.5	2	100	0	62	51	0	48	0	1.00
1685327--1685367	21	2.0	21	85	0	55	51	4	2	41	1.36
1687536--1687562	14	1.9	14	100	0	54	7	33	37	22	1.82
1688286--1688342	28	2.0	28	89	0	87	29	15	21	33	1.94
1700759--1700809	20	2.5	20	100	0	102	39	15	9	35	1.81
1705334--1705404	36	2.0	36	94	0	124	23	22	22	30	1.99
1712616--1712667	18	2.9	18	88	2	79	44	11	5	38	1.65
1712723--1712770	17	2.8	17	77	0	51	45	10	14	29	1.78
1714758--1714800	21	2.0	23	90	9	72	11	9	0	79	0.95
1716310--1716355	18	2.6	18	92	0	74	47	13	6	32	1.68
1716411--1716452	17	2.5	17	84	0	57	42	11	14	30	1.81
1717586--1717637	24	2.2	23	86	3	68	55	1	0	42	1.10
1717990--1718017	2	14.0	2	100	0	56	50	0	0	50	1.00
1724927--1725003	31	2.5	31	95	0	136	31	0	16	51	1.45
1725416--1725487	25	3.0	23	75	15	65	38	11	2	47	1.54
1725416--1725475	25	2.4	25	78	13	70	40	13	1	45	1.53
1725689--1725808	43	2.7	43	87	2	132	30	20	25	24	1.99
1725711--1725956	43	5.8	43	84	1	253	28	20	23	26	1.99
1725861--1725967	42	2.5	42	83	4	117	32	22	20	24	1.98
1726077--1726135	21	2.8	21	84	0	73	55	20	5	18	1.61
1729957--1730119	41	4.0	41	74	10	143	30	17	20	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1729989--1730144	83	1.9	82	81	6	190	31	18	19	30	1.96
1730204--1730294	41	2.2	41	84	7	114	26	18	24	30	1.98
1730223--1730304	41	2.0	42	86	11	116	32	15	20	30	1.94
1736215--1736326	39	2.9	39	95	0	197	19	42	19	17	1.89
1736365--1736390	10	2.6	10	100	0	52	30	38	23	7	1.83
1737677--1737703	11	2.5	11	100	0	54	25	0	0	74	0.83
1737940--1737999	31	1.9	31	83	12	79	50	10	0	40	1.36
1739910--1739990	42	1.9	43	87	2	119	35	9	20	33	1.86
1740163--1740216	12	4.3	12	79	9	63	22	12	7	57	1.60
1740164--1740222	26	2.3	26	87	0	91	22	13	6	57	1.59
1740140--1740222	14	6.2	14	70	16	50	25	14	4	55	1.59
1742297--1742324	2	14.0	2	100	0	56	50	0	0	50	1.00
1742611--1742692	26	3.0	27	81	8	87	73	8	14	3	1.21
1742669--1742740	9	7.8	9	76	13	58	81	0	12	5	0.84
1742670--1742740	19	3.7	19	72	10	72	83	0	11	5	0.81
1742644--1742740	28	3.4	28	81	9	106	79	1	14	5	0.96
1743312--1743373	32	1.9	32	96	0	115	43	19	17	19	1.88
1747175--1747340	54	3.1	54	90	0	260	37	16	22	23	1.93
1747698--1747776	22	3.6	22	87	0	104	34	15	13	36	1.87
1748323--1748420	40	2.5	40	98	0	187	48	9	23	18	1.76
1748526--1748698	73	2.3	76	88	6	244	35	15	16	32	1.90
1749121--1749147	10	2.7	10	100	0	54	18	40	18	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750733--1750790	30	1.9	31	86	6	84	50	10	0	39	1.37
1753068--1753096	15	1.9	15	100	0	58	55	6	17	20	1.65
1755425--1755506	30	2.8	30	83	1	94	36	31	17	14	1.90
1756785--1756925	64	2.2	63	80	9	153	26	24	17	31	1.97
1759854--1759901	13	3.8	13	80	5	62	66	12	4	16	1.39
1759850--1759923	26	2.9	25	82	8	78	68	9	2	18	1.29
1762118--1762154	17	2.2	18	80	14	51	59	2	0	37	1.12
1764874--1764905	13	2.5	13	100	0	64	6	25	56	12	1.59
1775031--1775365	166	2.0	167	95	4	606	27	20	12	39	1.89
1779238--1779267	15	2.0	15	93	0	51	30	6	16	46	1.73
1789328--1789364	16	2.3	16	100	0	74	32	16	16	35	1.91
1799715--1799756	21	2.0	21	90	0	66	26	26	23	23	2.00
1802408--1802448	20	2.0	21	90	4	66	31	26	17	24	1.97
1802553--1802625	19	4.1	19	77	22	95	16	30	32	20	1.95
1802554--1802620	33	2.0	34	91	8	111	17	31	29	20	1.96
1806992--1807059	23	3.0	23	82	4	84	25	26	23	25	2.00
1807088--1807121	17	2.1	17	88	5	52	26	23	11	38	1.89
1809355--1809418	22	2.9	22	83	4	76	28	25	21	25	1.99
1809420--1809477	30	1.9	30	85	0	80	34	22	17	25	1.96
1810721--1810777	20	2.8	20	91	0	96	14	29	29	26	1.95
1812253--1812278	12	2.2	12	100	0	52	23	7	7	61	1.49
1820152--1820389	119	2.0	119	100	0	476	36	9	15	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1820865--1820890	6	4.3	6	100	0	52	61	0	38	0	0.96
1821555--1821596	17	2.5	17	96	0	75	33	11	33	21	1.90
1824940--1824983	23	1.9	23	86	9	63	40	13	11	34	1.81
1824979--1825023	20	2.2	20	96	0	81	35	13	24	26	1.92
1825052--1825084	17	1.9	17	100	0	66	33	12	12	42	1.79
1831657--1831715	30	2.0	30	93	6	102	33	5	16	44	1.70
1831795--1831851	21	2.7	21	86	0	78	22	35	17	24	1.95
1831836--1831879	22	2.0	23	86	4	63	29	29	18	22	1.97
1836117--1836170	18	3.1	18	68	26	53	35	1	12	50	1.52
1838289--1838425	57	2.4	58	97	1	258	37	2	12	47	1.56
1840731--1840868	71	2.0	70	89	1	213	31	19	19	28	1.96
1846679--1846712	18	1.9	17	88	5	50	29	0	5	64	1.17
1846972--1847002	14	2.1	15	94	5	55	19	0	9	70	1.14
1848856--1848912	20	3.0	20	80	17	75	36	26	15	21	1.93
1853144--1853173	12	2.5	12	94	0	51	30	10	10	50	1.69
1856836--1856867	12	2.8	12	95	4	57	21	0	0	78	0.76
1859117--1859146	12	2.5	12	94	0	51	30	10	10	50	1.69
1863020--1863092	18	3.9	18	84	7	101	27	31	20	20	1.97
1863019--1863101	38	2.2	38	88	0	130	26	31	19	22	1.98
1863649--1863707	24	2.5	24	97	0	109	18	30	23	27	1.98
1869051--1869106	2	28.0	2	100	0	112	50	0	0	50	1.00
1873489--1873533	21	2.1	21	83	0	54	53	6	11	28	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1877524--1877596	38	1.9	38	88	0	110	35	5	17	41	1.73
1883363--1883402	8	5.1	8	81	6	55	35	0	27	37	1.57
1883483--1884341	128	6.7	128	95	1	1510	21	24	20	33	1.97
1883483--1884341	381	2.2	383	95	0	1544	21	24	20	33	1.97
1883483--1884341	255	3.4	255	94	1	1517	21	24	20	33	1.97
1884730--1884833	33	3.2	33	83	8	131	37	2	4	54	1.36
1885354--1885462	21	5.2	20	86	9	146	22	23	33	19	1.97
1885354--1885462	42	2.6	42	94	0	182	22	23	33	19	1.97
1885472--1885513	21	2.0	21	90	0	66	26	9	35	28	1.88
1889430--1889487	3	19.7	3	96	3	109	32	0	0	67	0.91
1890728--1890870	71	2.0	71	100	0	286	31	18	18	32	1.95
1892755--1892792	16	2.4	16	86	8	51	57	7	7	26	1.54
1893039--1893188	30	5.0	30	70	11	85	55	8	13	23	1.64
1895446--1895640	87	2.2	89	85	6	252	25	14	25	35	1.93
1895618--1895767	60	2.5	60	91	0	237	27	15	20	36	1.93
1896305--1896358	22	2.5	22	100	0	108	50	11	9	29	1.69
1902699--1904566	623	3.0	627	90	6	3022	31	15	16	35	1.91
1911959--1912014	23	2.4	23	93	0	94	12	26	25	35	1.91
1912841--1913003	22	7.6	22	90	3	244	28	30	25	15	1.96
1914315--1914364	19	2.6	19	96	0	91	22	34	22	22	1.97
1917096--1917149	17	3.2	17	72	0	54	31	0	3	64	1.11
1918695--1918746	21	2.5	22	87	6	72	21	28	25	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1919258--1919336	28	2.8	28	86	5	97	54	3	1	40	1.26
1919283--1919352	34	2.1	34	91	0	113	54	2	4	38	1.35
1919258--1919361	28	3.5	28	75	15	93	51	4	2	40	1.38
1919259--1919359	34	3.2	32	77	17	111	53	4	2	38	1.38
1919715--1920329	128	4.9	128	95	1	994	32	21	24	21	1.98
1921196--1921286	31	3.0	31	96	3	168	32	6	17	42	1.75
1921464--1921505	21	2.0	21	95	0	75	23	21	28	26	1.99
1921788--1921857	34	2.1	32	86	5	95	34	15	28	21	1.94
1927385--1927423	20	2.0	20	89	0	60	33	17	28	20	1.96
1927598--1927632	18	1.9	18	88	11	54	25	2	2	68	1.17

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18