genome.fa.s7930.2.7.7.80.10.50.1000.10.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: VEPZ01007930.1 Hibiscus syriacus cultivar Beakdansim tig00110338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2280901

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

This is table  10  of  12  ( 1413 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)
1780647--1781005	125	2.9	125	83	4	397	33	18	20	27	1.96
1780643--1781005	41	8.8	42	79	7	368	33	18	20	27	1.96
1783181--1783289	16	7.1	15	74	20	93	77	0	17	4	0.92
1783181--1783289	7	14.1	7	76	21	78	77	0	17	4	0.92
1783181--1783271	40	2.3	39	88	9	139	76	0	17	5	0.96
1783181--1783229	23	2.1	23	79	20	50	79	0	16	4	0.88
1783186--1783274	23	3.8	23	76	17	78	77	0	16	5	0.95
1783258--1783283	11	2.4	11	100	0	52	92	0	7	0	0.39
1788075--1788151	22	3.5	22	96	0	145	33	11	14	40	1.82
1788826--1789867	76	13.8	76	94	1	1815	24	19	21	34	1.96
1790037--1790086	3	17.0	3	95	4	93	34	0	0	66	0.92
1791374--1791422	19	2.5	20	83	6	64	48	0	2	48	1.12
1791542--1791593	27	1.9	27	88	0	77	38	0	0	61	0.96
1797617--1797691	38	2.0	37	84	5	98	49	2	0	48	1.15
1797698--1797748	25	2.0	25	100	0	102	49	0	7	43	1.32
1801768--1801797	10	3.0	10	95	0	51	20	6	20	53	1.67
1802701--1802753	21	2.5	21	81	6	72	20	26	18	33	1.96
1802763--1802859	20	4.8	20	73	7	70	32	23	16	26	1.96
1802760--1802837	41	1.9	41	91	0	129	37	21	17	23	1.94
1802904--1802962	14	3.9	14	74	20	55	10	15	23	50	1.74
1802899--1802978	33	2.4	33	93	0	124	12	17	21	48	1.80
1802920--1802978	19	3.4	19	73	22	74	13	16	20	49	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1802952--1803077	20	6.3	20	85	0	164	15	20	24	38	1.92
1802951--1803117	40	4.2	39	83	3	165	17	17	25	38	1.92
1802964--1803117	60	2.6	58	83	5	182	18	18	25	37	1.94
1802991--1803123	20	6.7	19	87	6	122	21	15	27	36	1.93
1803465--1803544	42	1.9	42	89	5	126	25	38	15	21	1.92
1803462--1803553	42	2.2	42	84	7	125	23	36	15	23	1.93
1804961--1804999	14	2.8	14	84	0	51	35	0	17	46	1.49
1805141--1805184	19	2.3	19	92	0	70	47	15	20	15	1.82
1805210--1805263	20	2.7	20	94	0	90	12	20	25	40	1.88
1805413--1805452	21	1.9	21	85	10	55	17	27	17	37	1.92
1806262--1806315	24	2.2	24	90	0	81	22	16	20	40	1.91
1806490--1806514	12	2.1	12	100	0	50	72	0	28	0	0.86
1808814--1808876	19	3.3	19	88	2	81	39	19	22	19	1.92
1808821--1808924	19	5.7	19	78	12	101	43	20	24	12	1.86
1808930--1809034	33	3.2	33	93	0	174	9	21	20	47	1.79
1808968--1809024	14	3.7	14	70	20	51	10	22	21	45	1.82
1809149--1809185	14	2.6	14	91	0	65	45	21	0	32	1.52
1812855--1812958	20	5.6	20	75	18	100	45	20	22	12	1.84
1812853--1812958	33	2.9	38	72	18	116	45	19	22	12	1.84
1812853--1812958	19	5.7	19	76	14	114	45	19	22	12	1.84
1812961--1813052	33	2.8	33	93	0	148	9	19	23	46	1.80
1812955--1813058	19	6.0	19	72	21	93	10	20	23	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1813709--1813757	20	2.4	20	86	3	62	26	22	12	38	1.89
1813834--1813879	19	2.3	20	81	7	58	26	17	28	28	1.98
1814729--1814819	23	3.9	24	72	4	78	35	23	19	21	1.96
1814734--1814832	47	2.1	47	82	0	117	36	20	21	22	1.95
1815672--1815800	55	2.3	55	79	9	156	29	19	23	27	1.98
1822505--1822632	55	2.3	55	84	4	170	28	16	23	31	1.96
1823225--1823279	23	2.4	23	82	8	69	18	25	21	34	1.96
1823957--1824002	24	1.9	24	95	0	83	43	21	6	28	1.77
1830518--1830632	61	1.9	61	87	0	167	24	17	27	30	1.97
1830742--1830899	47	3.4	47	91	3	243	39	8	18	32	1.81
1833722--1833756	14	2.5	14	100	0	70	68	0	0	31	0.90
1833760--1833825	11	5.7	11	84	13	80	81	0	16	1	0.76
1833751--1833826	29	2.6	29	87	10	102	81	1	15	1	0.82
1833751--1833826	9	7.7	9	76	16	62	81	1	15	1	0.82
1833751--1833840	13	6.5	14	75	19	66	80	1	16	2	0.88
1833751--1833851	41	2.4	42	85	9	127	78	0	17	2	0.94
1833763--1833854	12	7.5	11	77	16	76	79	0	17	3	0.86
1833779--1833853	14	5.7	13	78	17	57	78	0	18	2	0.86
1837380--1837494	61	1.9	61	90	0	185	26	19	26	28	1.98
1837604--1837808	47	4.4	47	90	2	310	39	6	20	33	1.78
1838194--1838220	12	2.2	12	100	0	54	40	14	25	18	1.89
1840670--1840728	24	2.5	24	88	2	84	35	23	22	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1840711--1840822	47	2.4	47	86	3	136	33	25	24	17	1.97
1840695--1840822	23	5.4	23	78	8	125	33	25	23	17	1.96
1843038--1843105	17	4.0	17	74	12	59	58	1	4	35	1.27
1843051--1843131	34	2.4	32	82	10	90	61	4	3	29	1.34
1843046--1843130	43	2.0	43	81	9	102	61	4	3	30	1.33
1845777--1845832	24	2.3	25	76	20	64	71	5	10	12	1.29
1845817--1845849	9	3.7	9	100	0	66	78	0	0	21	0.75
1845817--1845870	18	3.2	17	85	12	67	74	0	5	20	1.02
1845910--1845942	2	16.5	2	100	0	66	51	0	0	48	1.00
1846407--1846449	18	2.5	17	81	7	52	69	2	2	25	1.12
1846409--1846447	14	2.8	13	88	11	51	71	2	2	23	1.10
1846806--1846910	37	2.8	37	85	0	138	29	14	14	41	1.85
1847453--1847978	105	5.0	105	87	4	717	21	17	26	34	1.96
1848178--1848253	36	2.1	36	87	0	107	40	13	21	25	1.89
1848153--1848342	101	1.9	103	86	3	276	35	11	21	32	1.89
1848393--1848503	36	3.1	36	73	7	109	43	12	17	27	1.85
1848347--1848521	72	2.4	74	83	8	198	41	12	18	27	1.86
1849645--1850181	183	2.9	183	96	0	986	30	21	21	26	1.98
1854468--1854524	15	3.6	17	66	22	52	70	0	3	26	1.03
1854707--1854749	18	2.5	17	81	7	52	69	2	2	25	1.12
1854709--1854747	14	2.8	13	88	11	51	71	2	2	23	1.10
1856389--1856431	20	2.2	20	86	0	59	34	13	18	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1857929--1857969	20	2.0	22	90	9	68	24	34	4	36	1.77
1860130--1860154	3	8.3	3	100	0	50	0	32	36	32	1.58
1867450--1867489	18	2.2	18	100	0	80	22	37	30	10	1.87
1868675--1868715	16	2.6	16	88	3	57	36	12	21	29	1.90
1875702--1877424	857	2.0	857	99	0	3401	25	22	20	30	1.98
1881180--1881214	15	2.3	15	95	0	61	57	0	0	42	0.99
1881180--1881221	15	2.8	14	86	13	57	54	0	2	42	1.13
1883204--1883235	14	2.3	14	100	0	64	15	6	28	50	1.68
1883422--1883481	30	2.0	30	90	0	93	18	30	21	30	1.97
1886892--1886946	23	2.4	23	80	17	69	9	14	7	69	1.36
1887411--1887446	18	1.9	18	88	5	54	38	25	8	27	1.84
1889148--1889210	16	3.9	16	87	6	92	80	3	0	15	0.83
1889149--1889198	5	9.8	5	91	4	82	80	2	0	18	0.82
1889148--1889212	31	2.2	29	83	8	78	80	3	0	16	0.85
1898471--1898823	195	1.8	195	98	0	679	16	13	15	53	1.73
1903839--1903864	6	4.3	6	100	0	52	34	15	50	0	1.45
1907727--1907752	12	2.2	12	100	0	52	23	19	26	30	1.98
1908822--1908961	35	4.0	35	87	4	194	35	17	25	21	1.95
1908817--1908959	70	2.0	70	93	0	241	37	17	24	20	1.93
1913068--1913102	18	1.9	18	88	0	52	22	22	34	20	1.97
1916368--1916438	19	3.7	19	100	0	142	30	16	30	21	1.95
1917113--1917178	18	3.8	18	74	13	75	46	4	25	22	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1917417--1917541	18	6.9	18	84	0	151	20	21	31	26	1.98
1919876--1919925	2	25.0	2	100	0	100	50	0	0	50	1.00
1921881--1921915	18	1.9	18	88	0	52	20	20	34	25	1.96
1922071--1922110	13	3.0	13	85	7	53	35	0	20	45	1.51
1923097--1923147	24	2.0	26	85	7	70	21	7	9	60	1.53
1924454--1924505	20	2.6	20	96	0	95	28	25	17	28	1.97
1924599--1924698	42	2.4	42	87	0	146	28	31	9	32	1.88
1930449--1930561	22	5.3	22	73	12	83	29	24	20	25	1.99
1930530--1930578	21	2.3	20	83	10	62	36	30	12	20	1.89
1931200--1931273	20	3.7	20	74	7	69	27	29	13	29	1.94

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