genome.fa.s8953.2.7.7.80.10.50.1000.11.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: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2822058

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

This is table  11  of  15  ( 1787 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)
1735013--1735071	30	2.0	30	86	6	84	32	10	16	40	1.82
1735026--1735341	100	3.1	102	92	2	521	37	11	20	31	1.88
1735792--1735827	18	2.0	18	88	0	54	41	30	8	19	1.81
1736238--1736308	22	3.2	22	95	0	124	28	14	23	33	1.94
1736971--1737043	8	9.9	7	76	18	60	0	13	6	79	0.92
1738191--1738230	8	5.1	8	84	6	55	60	12	17	10	1.59
1738191--1738230	15	2.6	15	88	4	53	60	12	17	10	1.59
1738751--1738790	18	2.2	18	100	0	80	35	12	32	20	1.90
1740256--1740307	23	2.4	22	84	9	70	23	30	15	30	1.95
1742950--1743137	74	2.5	74	84	5	247	26	27	21	25	1.99
1746468--1746526	24	2.3	27	82	8	70	37	8	16	37	1.80
1747182--1747238	18	3.3	18	67	30	52	38	3	28	29	1.73
1749341--1749378	19	2.0	20	85	15	53	42	2	5	50	1.39
1749494--1749566	21	3.2	23	73	13	71	30	0	4	65	1.11
1749965--1750004	21	1.9	21	89	0	62	47	7	2	42	1.45
1749964--1750010	21	2.2	20	82	10	58	44	8	2	44	1.46
1750975--1751008	2	17.0	2	100	0	68	50	0	0	50	1.00
1752603--1752718	24	4.8	24	86	6	146	24	15	19	40	1.90
1752619--1752681	12	5.2	12	70	21	51	25	14	22	38	1.92
1752603--1752721	48	2.5	48	87	5	161	23	15	20	41	1.90
1754865--1754915	22	2.3	22	96	0	93	27	27	19	25	1.99
1756166--1756200	18	1.9	18	88	0	52	54	0	17	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1757252--1757367	24	4.8	24	84	10	148	25	16	18	40	1.90
1757268--1757330	12	5.2	12	70	21	51	25	14	22	38	1.92
1757252--1757370	48	2.5	48	87	8	163	24	15	18	41	1.90
1763729--1763779	25	2.0	25	100	0	102	19	11	31	37	1.88
1765075--1765202	31	4.1	31	95	0	229	36	18	18	25	1.94
1769560--1769712	31	4.9	31	85	6	191	39	18	15	27	1.90
1769560--1769712	64	2.4	62	85	4	209	39	18	15	27	1.90
1771619--1771651	18	1.9	17	88	11	50	18	18	9	54	1.69
1775953--1776061	29	3.8	29	90	4	175	31	14	17	36	1.90
1782109--1782146	7	5.4	7	100	0	76	0	71	0	28	0.87
1793154--1793201	24	2.0	24	88	8	71	22	43	6	27	1.77
1797985--1798029	17	2.6	17	79	10	56	60	2	24	13	1.45
1798329--1798374	24	1.9	24	86	0	65	19	41	6	32	1.77
1805197--1805320	31	4.1	31	71	13	105	50	17	15	16	1.79
1806739--1806780	22	1.9	22	85	9	59	30	21	9	38	1.85
1806821--1806874	20	2.6	20	85	5	63	24	29	16	29	1.97
1806912--1807008	42	2.3	42	80	3	106	36	25	15	22	1.94
1809172--1809249	21	3.7	21	77	8	95	32	28	15	24	1.95
1812435--1812490	11	5.1	11	79	16	71	37	8	12	41	1.74
1812435--1812490	22	2.5	22	94	0	94	37	8	12	41	1.74
1818611--1818655	22	2.0	22	86	8	63	57	0	0	42	0.98
1818816--1818886	21	3.3	21	79	13	72	61	4	2	30	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1820162--1820227	3	21.0	3	78	6	60	57	1	0	40	1.08
1821739--1821796	23	2.5	23	100	0	116	37	25	17	18	1.93
1821696--1821877	21	8.5	21	80	2	139	35	23	16	25	1.95
1823980--1824040	23	2.7	23	76	0	68	19	26	24	29	1.99
1829745--1829806	23	2.7	23	80	5	72	20	25	24	29	1.99
1835833--1835864	2	16.0	2	100	0	64	50	0	0	50	1.00
1837075--1837137	2	31.5	2	96	0	108	47	0	3	49	1.17
1840252--1840351	35	2.7	35	86	6	119	38	15	16	31	1.89
1840931--1840966	17	2.2	16	90	5	54	13	0	2	83	0.76
1840940--1840964	12	2.1	12	100	0	50	16	0	0	84	0.63
1844371--1844433	23	2.7	22	81	13	74	79	6	14	0	0.92
1844379--1844440	20	2.9	22	81	9	67	79	6	12	1	1.00
1845051--1845101	22	2.3	22	96	0	93	35	27	11	25	1.91
1845965--1846069	36	2.9	36	91	2	165	24	23	13	38	1.91
1845965--1846074	37	3.0	37	90	2	168	26	23	12	37	1.91
1845983--1846436	102	4.5	102	94	0	782	29	20	12	37	1.90
1846101--1846375	37	7.9	37	66	23	159	28	20	13	37	1.91
1846347--1846505	65	2.4	65	93	0	282	30	20	12	35	1.90
1847007--1847343	160	2.1	160	95	0	602	32	25	21	20	1.98
1847166--1847665	205	2.5	202	82	2	536	33	23	20	22	1.97
1847167--1847667	98	4.9	104	79	7	504	33	23	20	22	1.97
1848128--1848196	35	1.9	37	88	5	106	42	15	14	27	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850980--1851013	12	2.7	13	86	9	52	41	5	8	44	1.60
1852809--1852846	19	1.9	21	89	10	62	55	15	2	26	1.54
1853327--1853353	14	1.9	14	100	0	54	37	14	14	33	1.88
1863054--1863121	6	11.7	6	93	6	122	17	14	32	35	1.91
1863118--1863155	6	6.5	6	96	3	69	34	0	15	50	1.45
1863059--1863130	18	4.2	16	92	3	72	19	12	30	37	1.89
1866089--1866118	6	5.2	6	92	8	53	66	0	0	33	0.92
1866710--1866771	22	2.5	26	75	21	71	56	4	6	32	1.46
1872629--1872679	22	2.3	22	86	0	75	37	5	15	41	1.72
1878453--1878656	98	2.0	100	97	2	385	35	11	24	28	1.90
1879186--1879219	17	1.9	17	88	5	50	35	2	2	58	1.28
1880230--1880290	30	2.0	30	83	0	77	40	8	19	31	1.81
1883419--1883495	19	4.1	19	74	0	64	38	9	20	31	1.84
1886971--1887016	15	3.1	15	81	12	58	43	23	8	23	1.82
1887134--1887174	21	1.9	22	90	5	66	43	12	9	34	1.75
1888381--1888459	26	3.2	24	79	15	65	50	2	10	36	1.50
1888784--1888810	14	1.9	14	100	0	54	59	3	22	14	1.51
1889355--1889393	20	2.0	20	89	0	60	56	5	17	20	1.60
1890715--1890805	41	2.2	41	90	0	137	32	8	18	39	1.82
1890847--1891064	41	5.1	41	77	12	213	31	11	20	36	1.89
1890896--1891001	51	2.1	51	87	7	153	33	11	18	36	1.87
1890855--1891042	92	2.0	92	87	4	272	32	10	20	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1893770--1893832	20	3.2	20	72	4	56	31	7	15	44	1.76
1894265--1894321	2	28.5	2	100	0	114	49	0	0	50	1.00
1896053--1896128	33	2.3	33	97	0	143	11	9	18	60	1.57
1896694--1896789	43	2.2	43	81	9	115	36	15	17	30	1.91
1901218--1901455	6	40.3	6	96	3	448	50	16	0	33	1.46
1903282--1903351	24	2.9	24	79	8	79	22	11	5	60	1.52
1903537--1903574	14	2.7	14	91	0	58	7	10	23	57	1.58
1903660--1903804	73	2.0	75	81	2	177	26	16	12	44	1.83
1907453--1907571	37	3.3	36	83	5	143	45	19	3	31	1.67
1907452--1907570	35	3.3	36	87	5	161	45	20	2	31	1.64
1910859--1910890	15	2.1	15	94	0	55	6	25	15	53	1.65
1912075--1912193	35	3.3	36	89	5	179	44	18	5	31	1.71
1914823--1914919	35	2.8	35	93	3	160	23	12	18	45	1.83
1918896--1918958	21	3.1	20	79	9	65	69	3	3	23	1.17
1919054--1919256	24	7.6	24	75	20	172	47	7	2	42	1.44
1919040--1919264	29	8.1	28	78	11	227	47	7	2	43	1.43
1919039--1919264	57	4.1	57	88	8	292	47	7	2	43	1.43
1919057--1919256	83	2.5	76	79	13	220	48	7	2	42	1.45
1919232--1919316	44	1.9	45	88	7	129	44	5	3	45	1.45
1920000--1920035	13	2.6	15	79	20	51	27	13	0	58	1.36
1920018--1920063	19	2.4	20	89	7	69	30	10	4	54	1.55
1921967--1922080	40	2.8	40	90	0	165	31	14	20	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1928527--1928564	19	2.0	20	94	5	69	18	28	10	42	1.83
1928476--1928890	46	9.1	46	89	2	606	23	23	9	43	1.82
1928624--1928701	20	3.6	20	69	24	59	24	23	8	43	1.82
1935446--1935926	20	21.7	20	69	20	248	23	23	9	43	1.84
1935433--1935952	46	11.6	46	87	5	735	24	22	10	43	1.84
1935439--1935952	183	2.9	177	86	6	725	23	22	10	43	1.84
1936329--1936510	94	1.9	94	86	6	262	25	22	15	36	1.93
1936329--1936551	94	2.4	94	81	10	244	26	21	16	35	1.94
1951022--1951049	5	5.6	5	100	0	56	21	0	57	21	1.41
1952397--1952901	260	1.9	257	92	4	854	34	11	8	45	1.71

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