genome.fa.s8428.2.7.7.80.10.50.1000.6.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   27   28   29   30   

This is table  6  of  30  ( 3508 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)
1640870--1640906	19	1.9	19	94	0	65	21	16	29	32	1.95
1641004--1641045	22	2.0	21	86	13	59	38	0	0	61	0.96
1641039--1641075	14	2.6	15	83	12	51	45	2	10	40	1.53
1644064--1644088	2	12.5	2	100	0	50	48	0	0	52	1.00
1645874--1645933	30	2.0	30	96	0	111	30	11	25	33	1.91
1651289--1651347	29	2.0	30	86	3	84	42	5	13	38	1.66
1652772--1653151	189	2.0	190	99	0	753	41	20	14	23	1.90
1659039--1659069	16	1.9	16	93	0	53	6	32	6	54	1.51
1661806--1661851	23	2.0	23	100	0	92	34	17	30	17	1.93
1662893--1662942	23	2.2	23	85	7	66	58	12	2	28	1.45
1668420--1668466	23	2.0	23	84	8	60	57	12	2	27	1.47
1668639--1668687	26	1.9	25	84	12	64	10	42	20	26	1.84
1670729--1670780	23	2.1	25	82	10	63	76	0	5	17	0.97
1675974--1676013	15	2.5	17	80	11	50	32	5	5	57	1.42
1684310--1684363	26	2.0	27	86	10	76	77	0	18	3	0.91
1684306--1684363	28	2.1	27	84	9	73	77	0	18	3	0.91
1686720--1686847	44	3.0	43	85	4	141	32	25	17	24	1.97
1686747--1686824	23	3.5	22	70	15	61	33	26	19	20	1.96
1688826--1689148	180	1.8	178	81	9	406	41	11	10	36	1.75
1689322--1689576	137	1.9	138	87	2	379	36	7	8	46	1.64
1699625--1699704	21	3.7	21	67	23	58	37	25	16	21	1.93
1699619--1699748	44	3.0	44	89	0	179	34	26	17	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1699661--1699727	23	3.0	23	70	24	70	34	25	19	20	1.96
1699676--1699748	21	3.4	21	72	23	62	35	27	15	21	1.93
1700789--1700913	37	3.4	37	86	0	169	29	17	12	40	1.86
1701367--1701400	3	11.7	3	93	6	61	29	0	0	70	0.87
1719176--1719286	44	2.5	44	85	5	145	34	22	16	27	1.95
1719210--1719284	23	3.3	23	66	7	64	36	25	17	21	1.95
1719176--1719301	44	2.9	44	82	4	121	33	23	17	25	1.96
1721598--1721725	37	3.5	37	76	6	134	34	16	10	38	1.84
1721999--1722037	15	2.6	15	100	0	78	30	20	12	35	1.90
1721971--1722074	52	2.0	52	86	0	145	28	20	13	37	1.90
1722527--1722569	20	2.2	20	83	8	52	30	2	0	67	1.03
1725309--1725582	145	1.9	145	83	0	359	33	13	15	37	1.87
1728014--1728071	18	3.2	18	69	13	55	18	10	1	68	1.26
1727994--1728095	37	2.8	37	83	3	125	20	10	1	66	1.32
1728019--1728078	18	3.3	18	70	11	50	23	8	1	66	1.28
1730544--1730642	39	2.5	39	88	3	137	33	13	32	21	1.91
1733273--1733356	22	3.8	22	95	1	132	17	26	32	23	1.97
1744588--1744631	21	2.1	21	82	0	52	9	43	15	31	1.79
1749269--1749488	93	2.4	93	83	3	273	30	20	9	40	1.83
1749429--1749559	69	1.9	69	84	3	174	28	19	9	43	1.81
1749608--1749767	36	4.4	36	84	3	162	26	21	14	38	1.91
1758493--1758701	111	1.9	111	94	0	373	34	15	19	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1759911--1759969	23	2.6	21	79	15	55	35	22	20	22	1.96
1760540--1760610	33	2.2	33	94	2	126	26	21	2	49	1.63
1762850--1762901	14	3.6	14	84	7	52	30	9	21	38	1.85
1762858--1762887	14	2.1	14	100	0	60	30	13	20	36	1.90
1768169--1769421	106	11.9	106	91	3	1982	22	17	24	35	1.95
1768169--1769421	210	5.9	210	92	3	1997	22	17	24	35	1.95
1769738--1769905	65	2.5	66	88	3	248	37	9	22	30	1.86
1769816--1770060	102	2.4	101	84	0	328	39	11	21	27	1.88
1769972--1770095	36	3.4	36	93	0	203	38	11	21	28	1.88
1769868--1770182	137	2.3	138	82	2	364	38	12	20	29	1.89
1771098--1771141	22	2.0	22	95	0	79	25	13	22	38	1.91
1771763--1771819	7	8.7	7	80	16	52	0	12	8	78	0.95
1771752--1771828	37	2.1	36	81	13	86	1	11	6	80	0.95
1771750--1771811	7	8.7	7	79	10	54	1	11	6	80	0.96
1771750--1771828	25	3.2	24	84	10	88	1	11	6	81	0.93
1772999--1773035	16	2.3	16	90	0	56	54	13	16	16	1.72
1774767--1774791	11	2.3	11	100	0	50	68	0	0	32	0.90
1776289--1776389	33	3.0	33	95	1	184	45	14	11	27	1.80
1776947--1776979	14	2.3	15	89	5	50	39	0	9	51	1.34
1778204--1778239	14	2.6	14	95	0	63	8	5	0	86	0.72
1781868--1781905	20	1.9	20	88	0	58	42	0	26	31	1.56
1783066--1783126	2	30.5	2	100	0	122	50	49	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1785448--1785737	152	1.9	152	93	0	499	30	17	16	35	1.93
1788189--1788237	21	2.4	20	83	12	64	75	2	14	8	1.12
1789053--1789126	4	18.8	4	72	22	59	20	6	1	71	1.16
1789047--1789127	25	3.1	25	69	22	67	18	8	1	71	1.18
1789055--1789109	18	2.9	18	79	15	58	21	5	1	70	1.16
1790002--1790106	37	2.8	37	85	0	138	40	14	14	31	1.86
1790524--1790571	24	2.0	24	84	11	64	25	2	2	70	1.09
1790765--1790865	22	4.7	20	74	10	76	30	3	0	64	1.18
1790965--1791020	19	2.9	19	75	19	62	23	8	1	66	1.30
1795287--1795354	29	2.5	26	79	9	73	83	2	8	4	0.87
1795288--1795354	27	2.5	28	81	13	79	83	2	8	4	0.88
1795287--1795365	14	5.6	13	74	16	61	82	3	8	5	0.94
1795296--1795364	9	7.9	8	75	16	50	81	4	10	4	0.97
1796910--1798180	106	12.0	106	93	0	2002	34	25	18	22	1.96
1799432--1799460	8	3.6	8	100	0	58	37	0	10	51	1.36
1799584--1799609	13	2.0	13	100	0	52	23	7	0	69	1.14
1799692--1799810	44	2.6	44	77	17	116	28	4	0	66	1.16
1799896--1799951	19	2.9	19	75	19	62	23	8	1	66	1.30
1809584--1809637	21	2.6	21	93	0	99	24	25	25	24	2.00
1809781--1809860	22	3.6	22	91	3	133	26	16	25	32	1.96
1811212--1811258	20	2.4	19	82	10	51	31	12	6	48	1.66
1812579--1812633	24	2.5	20	80	11	56	21	21	21	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1812659--1812737	22	3.6	22	96	0	149	25	16	25	32	1.96
1814774--1814801	3	9.3	3	100	0	56	64	0	0	35	0.94
1825848--1826150	83	3.7	81	79	3	284	30	19	18	32	1.96
1825848--1826164	164	1.9	165	83	0	411	30	18	18	31	1.95
1828761--1828859	40	2.5	40	94	0	171	16	22	38	23	1.93
1828761--1828871	40	2.8	39	91	2	159	15	25	36	22	1.93
1829127--1829167	11	3.7	11	87	6	57	70	0	12	17	1.16
1834239--1834272	17	1.9	18	88	5	52	64	5	0	29	1.17
1837311--1837420	29	3.6	30	84	12	143	42	5	0	51	1.24
1837311--1837451	29	4.6	29	79	11	140	45	4	0	49	1.23
1837440--1837489	20	2.4	20	83	12	57	36	6	0	58	1.23
1837484--1837567	30	2.7	30	80	14	91	61	5	1	30	1.27
1837524--1837579	26	2.2	26	84	12	71	58	8	0	32	1.29
1837592--1837620	15	1.9	15	100	0	58	65	0	0	34	0.93
1846288--1846322	17	2.1	17	100	0	70	45	11	5	37	1.64
1846600--1846640	21	2.0	21	95	0	73	70	17	12	0	1.16
1852663--1852963	163	1.8	163	98	0	584	26	24	19	29	1.98
1856475--1856508	16	2.1	16	100	0	68	17	11	23	47	1.81
1862792--1862842	22	2.3	22	79	0	66	39	27	17	15	1.90
1862857--1862903	19	2.5	19	93	6	78	36	17	25	21	1.94
1866207--1866233	13	2.1	13	100	0	54	59	0	7	33	1.25
1867588--1867633	3	15.0	3	86	13	67	32	4	0	63	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1867589--1867631	21	2.0	21	100	0	86	32	4	0	62	1.15
1875036--1875074	17	2.3	17	86	0	51	51	10	20	17	1.74
1875559--1875737	44	4.2	41	72	7	135	29	22	18	28	1.98
1875818--1875940	41	2.9	43	82	7	142	31	24	14	29	1.95
1875602--1876040	213	2.1	213	84	1	576	32	20	17	29	1.95
1875958--1876176	79	2.8	80	81	4	246	39	14	17	28	1.89
1879058--1879383	55	5.9	55	91	0	454	36	15	17	30	1.91
1879058--1879383	110	3.0	110	91	0	517	36	15	17	30	1.91
1879058--1879384	165	2.0	165	90	0	510	36	16	17	30	1.91
1887804--1887944	35	4.0	35	87	5	189	43	17	19	18	1.88

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   27   28   29   30