genome.fa.s8323.2.7.7.80.10.50.1000.9.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  9  of  26  ( 3017 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)
1644224--1644276	20	2.6	19	80	11	61	35	16	32	15	1.90
1644641--1644816	70	2.5	70	93	0	307	15	14	18	51	1.76
1646221--1646268	23	2.1	23	88	0	69	37	6	14	41	1.71
1646705--1646999	159	1.9	160	91	2	486	27	15	12	44	1.83
1647099--1647146	21	2.3	21	96	0	87	35	10	16	37	1.83
1647124--1647370	110	2.2	112	90	5	396	25	15	13	44	1.84
1647772--1647810	12	3.2	12	92	0	60	43	2	0	53	1.14
1647765--1647806	18	2.3	18	87	4	57	40	4	0	54	1.21
1647781--1647810	6	5.0	6	91	0	51	46	0	0	53	1.00
1648511--1649078	277	2.0	280	87	2	811	35	22	15	26	1.94
1655199--1655231	18	1.9	18	88	11	52	3	12	21	63	1.41
1659125--1659243	30	3.9	31	78	9	129	32	20	16	30	1.95
1668265--1668313	16	3.0	17	76	11	57	38	0	0	61	0.96
1668904--1668936	2	17.0	2	87	6	50	45	0	0	54	0.99
1668904--1668933	11	2.8	11	95	5	53	43	0	0	56	0.99
1672320--1672388	33	2.1	33	94	2	122	34	13	14	37	1.85
1672388--1672424	2	18.5	2	88	0	56	45	0	0	54	1.00
1674783--1674831	23	2.1	23	84	0	62	44	14	16	24	1.84
1677420--1677681	106	2.5	106	84	1	328	24	16	25	33	1.96
1678362--1678581	66	3.3	66	89	2	336	35	13	19	31	1.90
1678519--1678614	37	2.6	37	83	4	124	37	11	19	31	1.88
1678644--1678695	22	2.4	22	100	0	104	36	9	25	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1678666--1679262	92	6.4	92	89	5	939	38	12	18	30	1.88
1679228--1679319	39	2.4	37	81	13	123	39	13	20	27	1.89
1679243--1679322	39	2.1	39	95	0	142	35	13	18	32	1.90
1680606--1680959	183	1.9	183	94	0	618	30	21	20	27	1.98
1686011--1686055	20	2.2	20	96	0	81	35	13	24	26	1.92
1697086--1697160	35	2.1	35	85	0	96	36	1	20	42	1.60
1698782--1698815	3	11.3	3	100	0	68	67	0	0	32	0.91
1700781--1700844	23	2.8	23	90	0	101	26	26	28	18	1.98
1700863--1701180	103	3.1	103	96	0	573	36	23	12	26	1.91
1705155--1705225	18	3.9	18	94	0	115	19	21	30	28	1.97
1725913--1726274	120	3.0	120	95	0	652	33	8	18	40	1.80
1733099--1733160	31	2.0	31	96	0	115	27	25	20	25	1.99
1734604--1734662	30	1.9	31	82	3	75	49	0	1	49	1.11
1735030--1735071	2	21.5	2	90	4	68	54	0	0	45	0.99
1736448--1736489	13	3.1	14	80	13	52	59	0	0	40	0.97
1736619--1736722	46	2.3	46	88	1	156	34	20	20	25	1.96
1736655--1737379	76	9.6	76	96	0	1280	34	22	19	22	1.96
1736655--1737379	151	4.8	151	96	0	1310	34	22	19	22	1.96
1738226--1738280	22	2.5	22	93	0	101	40	14	10	34	1.81
1742952--1743002	9	5.4	9	77	11	50	3	23	0	72	1.01
1742968--1743017	20	2.4	21	80	6	57	6	22	0	72	1.07
1750034--1750088	22	2.5	22	96	0	101	25	27	29	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750393--1750440	3	15.3	3	78	8	51	58	0	0	41	0.98
1750372--1750449	28	2.7	29	81	15	83	52	0	0	47	1.00
1750403--1750448	22	2.1	22	88	8	67	52	0	0	47	1.00
1750387--1750442	16	3.5	16	76	16	62	55	0	0	44	0.99
1754972--1755024	16	3.2	16	72	5	52	41	26	1	30	1.66
1755197--1755265	23	3.0	23	86	0	93	27	26	26	20	1.99
1755281--1755596	103	3.1	103	95	0	569	36	23	13	26	1.92
1757279--1757323	21	2.1	21	87	0	63	15	24	28	31	1.96
1761110--1761183	25	3.0	25	100	0	148	12	8	10	68	1.38
1766151--1766201	27	1.9	27	84	4	68	43	9	13	33	1.77
1773521--1773618	41	2.4	41	87	0	133	36	20	15	27	1.93
1779948--1780051	52	2.0	53	94	3	185	31	17	22	28	1.96
1785560--1785981	41	10.2	41	77	7	340	22	21	20	36	1.96
1785560--1785947	81	4.7	82	76	8	351	23	21	19	35	1.96
1785574--1785981	42	9.9	42	78	7	347	23	21	19	35	1.96
1786104--1786155	21	2.5	21	90	3	88	42	26	17	13	1.86
1790470--1790580	29	3.8	29	92	0	186	36	4	17	41	1.69
1791463--1791530	32	2.2	31	81	7	75	17	32	27	22	1.96
1791893--1791949	9	6.2	9	80	10	62	56	1	1	40	1.20
1791892--1791952	17	3.5	17	73	8	59	54	1	1	42	1.20
1792017--1792059	18	2.5	17	82	14	52	62	4	4	27	1.35
1798858--1798920	23	2.8	21	79	13	63	26	25	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800280--1800326	7	6.7	7	80	9	51	14	0	27	57	1.38
1800270--1800310	14	2.9	14	85	3	55	17	0	29	53	1.44
1804444--1804506	32	1.9	34	83	6	85	55	1	1	41	1.19
1817520--1817548	15	2.0	15	93	6	51	48	3	0	48	1.18
1819075--1819117	22	2.0	22	86	4	61	41	0	6	51	1.29
1825589--1825631	24	1.9	22	86	13	61	51	6	4	37	1.50
1825855--1825894	2	20.0	2	94	0	71	47	2	0	50	1.14
1825803--1825954	76	2.0	77	87	5	202	51	10	4	33	1.57
1825963--1826054	31	3.1	31	61	20	77	42	14	8	34	1.76
1825935--1826054	59	2.0	60	95	4	217	42	15	8	34	1.76
1826054--1826184	47	2.7	48	83	8	167	48	12	7	31	1.68
1826167--1826229	2	31.5	2	100	0	126	50	0	0	49	1.00
1826006--1826439	232	1.8	236	93	5	763	48	11	6	33	1.66
1826406--1826439	2	17.5	2	93	6	61	52	0	0	47	1.00
1826286--1826628	54	6.7	50	70	14	191	48	12	7	31	1.69
1826494--1826624	48	2.7	49	85	4	167	48	13	7	29	1.70
1826609--1826650	2	21.5	2	95	4	77	50	0	0	50	1.00
1826190--1826759	208	2.7	213	90	7	893	47	12	7	32	1.69
1827881--1827931	3	17.0	3	88	8	77	62	0	0	37	0.95
1828171--1828650	136	3.6	135	85	4	645	26	20	17	35	1.95
1829522--1829600	8	10.5	8	68	22	55	10	13	1	74	1.12
1829523--1829579	13	4.1	13	79	16	69	12	14	0	73	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1829516--1829568	20	2.8	20	81	16	67	9	15	0	75	1.04
1829528--1829576	15	3.3	15	84	15	66	10	12	0	77	0.99
1829514--1829589	30	2.6	31	85	10	106	10	14	0	75	1.06
1833381--1833416	7	5.1	7	100	0	72	69	0	13	16	1.19
1841412--1841455	22	2.0	23	95	4	81	50	6	4	38	1.50
1841629--1841742	53	2.1	54	96	1	212	54	10	5	29	1.56
1841808--1841891	43	2.0	44	86	9	122	53	14	7	25	1.66
1841897--1841952	2	28.5	2	96	3	105	50	0	0	50	1.00
1842025--1842144	54	2.2	55	82	8	147	50	9	8	32	1.64
1842121--1842147	2	13.5	2	100	0	54	51	0	0	48	1.00
1842202--1842326	46	2.7	46	83	3	144	48	11	8	32	1.68
1842308--1842368	2	31.0	2	96	3	115	49	0	0	50	1.00
1843595--1843652	3	19.0	3	96	3	107	65	0	0	34	0.93
1843806--1843837	2	16.0	2	100	0	64	50	0	0	50	1.00
1847038--1847174	60	2.3	60	84	5	179	34	19	14	31	1.92
1851033--1851058	13	2.0	13	100	0	52	30	23	7	38	1.83
1860196--1860229	2	17.0	2	100	0	68	50	0	50	0	1.00
1861192--1861264	27	2.7	27	97	0	137	26	10	23	39	1.87
1861333--1861359	2	13.5	2	100	0	54	48	0	0	51	1.00
1869158--1869192	2	17.5	2	93	0	61	48	2	0	48	1.16
1874619--1874653	16	2.2	16	90	5	54	45	5	0	48	1.26
1886636--1886797	41	3.9	41	75	9	132	31	20	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1888476--1888540	33	2.0	33	87	0	94	13	18	26	41	1.88
1891213--1891267	21	2.6	21	82	0	65	20	5	21	52	1.66
1891383--1891478	43	2.2	43	80	7	106	22	20	20	35	1.96
1891469--1891605	43	3.2	43	90	0	202	24	24	23	27	2.00
1893367--1893417	16	3.4	15	82	15	61	35	0	1	62	1.06
1894149--1894211	28	2.3	28	97	2	119	42	36	7	12	1.72
1896579--1896636	30	2.0	29	86	10	82	29	3	24	43	1.70
1898840--1898880	2	20.5	2	89	0	64	0	53	0	46	1.00
1908168--1908220	22	2.5	21	72	6	52	18	16	5	58	1.58
1913295--1913343	25	2.0	25	95	0	89	28	14	14	42	1.84

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26