genome.fa.s9070.2.7.7.80.10.50.1000.7.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: VEPZ01009070.1 Hibiscus syriacus cultivar Beakdansim tig00112498_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2268343

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1013 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)
1644944--1645001	27	2.1	28	84	9	75	43	15	3	37	1.64
1645516--1645554	13	3.0	13	100	0	78	53	0	0	46	1.00
1654246--1654305	30	2.0	30	96	0	111	33	5	16	45	1.69
1654385--1654442	21	2.8	21	100	0	116	20	36	18	24	1.95
1654500--1654539	21	2.0	20	85	5	53	22	27	17	32	1.96
1654508--1654551	20	2.1	21	87	4	63	20	34	15	29	1.94
1654916--1654985	34	2.1	32	86	5	95	32	15	28	22	1.95
1655829--1655876	19	2.5	20	82	3	62	52	6	12	29	1.63
1657023--1657062	21	1.9	21	94	0	71	32	10	7	50	1.64
1657172--1657231	30	2.0	30	96	0	111	30	5	20	45	1.72
1657312--1657366	21	2.6	21	100	0	110	20	36	20	23	1.95
1657432--1657486	20	2.7	21	94	2	94	20	34	18	27	1.95
1662443--1662524	21	3.9	21	90	1	128	23	30	28	18	1.97
1662885--1662914	10	3.1	10	90	9	53	53	6	0	40	1.27
1664112--1664151	19	2.0	20	85	14	55	35	7	2	55	1.42
1682796--1682852	3	19.0	3	92	0	96	29	0	3	66	1.08
1682820--1682863	21	2.1	21	82	0	52	22	4	11	61	1.48
1685041--1685083	19	2.3	19	92	4	70	30	20	0	48	1.50
1686028--1686076	21	2.2	22	79	17	57	40	14	4	40	1.64
1687364--1687388	13	1.9	13	100	0	50	76	0	24	0	0.80
1693240--1693268	3	9.7	3	100	0	58	34	0	0	65	0.93
1694178--1694207	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701878--1701953	38	2.0	38	97	0	143	44	13	11	30	1.79
1707960--1708026	22	3.0	22	100	0	134	26	26	26	19	1.99
1708246--1708304	30	1.9	31	86	3	84	33	22	6	37	1.80
1708319--1708390	29	2.5	29	90	0	108	38	12	11	37	1.79
1708696--1708846	67	2.3	66	87	4	205	18	27	27	26	1.98
1708826--1708868	21	2.0	21	86	0	59	16	25	27	30	1.97
1708697--1708868	67	2.6	66	84	7	188	18	27	26	27	1.98
1714894--1714960	22	3.0	22	100	0	134	26	26	26	19	1.99
1715180--1715238	30	1.9	31	86	3	84	33	22	6	37	1.80
1715253--1715324	29	2.5	29	90	0	108	38	12	11	37	1.79
1715631--1715802	66	2.6	66	84	7	197	18	27	26	27	1.98
1715760--1715802	21	2.0	21	86	0	59	16	25	27	30	1.97
1718691--1718754	23	2.8	22	83	4	74	26	25	26	21	2.00
1718774--1718987	103	2.1	103	96	0	392	38	25	10	25	1.88
1721227--1721354	55	2.3	56	88	7	183	57	17	11	12	1.64
1721808--1721840	17	2.0	17	88	5	50	45	0	9	45	1.35
1722538--1722582	22	2.0	22	83	12	56	46	20	15	17	1.84
1725562--1725638	30	2.6	29	78	11	93	50	2	6	40	1.42
1725567--1725608	15	2.9	14	82	10	57	61	2	0	35	1.09
1725620--1725671	20	2.7	20	90	3	79	46	3	9	40	1.55
1725822--1725860	13	2.9	13	81	7	51	38	0	0	61	0.96
1725982--1726042	25	2.5	25	82	15	74	55	1	0	42	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1725986--1726088	28	3.6	28	77	22	99	54	1	0	43	1.11
1725999--1726048	25	2.0	26	88	11	77	56	2	0	42	1.11
1726017--1726073	24	2.2	27	81	12	66	56	1	0	42	1.10
1726059--1726146	23	3.8	24	78	13	87	47	1	1	50	1.16
1726072--1726129	13	3.8	16	68	25	52	46	0	1	51	1.11
1726098--1726139	17	2.4	19	77	22	56	52	0	0	47	1.00
1726098--1726143	8	5.1	9	79	15	51	52	0	0	47	1.00
1726743--1726795	27	1.9	28	96	3	99	32	7	3	56	1.45
1729616--1729667	27	1.9	27	92	0	86	44	13	9	32	1.76
1732805--1732836	2	16.0	2	100	0	64	50	0	0	50	1.00
1736352--1736572	55	4.0	55	88	1	320	26	15	19	38	1.92
1736976--1737022	19	2.5	19	100	0	94	27	34	10	27	1.90
1738562--1738628	22	3.0	22	100	0	134	26	26	26	19	1.99
1738848--1738906	30	1.9	31	86	3	84	33	22	6	37	1.80
1738921--1738992	29	2.5	29	90	0	108	38	12	11	37	1.79
1739297--1739468	66	2.6	66	85	5	204	18	27	26	26	1.98
1739426--1739468	21	2.0	21	86	0	59	16	25	27	30	1.97
1745495--1745561	22	3.0	22	100	0	134	26	26	26	19	1.99
1745781--1745839	30	1.9	31	86	3	84	33	22	6	37	1.80
1745854--1745925	29	2.5	29	90	0	108	38	12	11	37	1.79
1746230--1746401	66	2.6	66	85	5	204	18	27	26	26	1.98
1746359--1746401	21	2.0	21	86	0	59	16	25	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747650--1747683	13	2.5	13	90	4	50	64	0	2	32	1.08
1754065--1754089	2	12.5	2	100	0	50	48	0	0	52	1.00
1754426--1754466	21	1.9	22	90	5	66	41	2	0	56	1.13
1759861--1759886	3	8.7	3	100	0	52	0	0	34	65	0.93
1764082--1764176	31	3.1	31	68	18	83	49	13	8	28	1.71
1773752--1773786	16	2.2	16	90	5	54	57	0	0	42	0.99
1774974--1775025	3	17.0	3	84	11	70	30	0	3	65	1.10
1776795--1776837	19	2.3	19	83	0	50	25	4	9	60	1.47
1781815--1781852	11	3.4	11	89	7	58	71	10	13	5	1.30
1783004--1783055	16	3.5	15	80	20	65	46	25	0	28	1.53
1783017--1783089	4	19.0	4	77	13	73	49	20	0	30	1.49
1783538--1783776	105	2.3	102	83	6	286	30	19	12	37	1.89
1783744--1783841	36	2.8	35	78	6	101	36	18	12	32	1.88
1784080--1784169	29	3.2	29	90	3	139	27	8	15	47	1.75
1784280--1784306	1	27.0	1	100	0	54	100	0	0	0	0.00
1784327--1784521	65	3.0	66	85	7	256	31	11	12	44	1.78
1785108--1785516	40	9.7	40	69	16	184	24	31	19	24	1.98
1785138--1785385	46	5.7	46	73	13	191	25	30	20	24	1.99
1785098--1785258	83	1.9	83	85	7	223	24	31	20	22	1.98
1785108--1785427	129	2.5	128	90	2	489	24	30	19	25	1.98
1785675--1785726	3	17.0	3	84	11	70	30	0	3	65	1.10
1787496--1787538	19	2.3	19	83	0	50	25	4	9	60	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1789529--1789555	2	13.5	2	100	0	54	48	0	0	51	1.00
1791352--1791426	24	3.1	24	79	11	73	54	20	12	13	1.70
1791352--1791427	38	2.0	38	89	5	118	53	19	13	13	1.71
1791372--1791416	14	3.2	14	96	0	81	53	22	13	11	1.71
1791384--1791437	24	2.2	24	76	0	63	46	25	16	11	1.80
1793097--1793156	26	2.3	26	82	2	66	35	6	10	48	1.63
1793392--1793466	22	3.5	22	73	10	84	18	17	25	38	1.92
1793392--1793456	19	3.2	20	72	10	62	18	18	24	38	1.93
1794174--1794226	22	2.4	22	100	0	106	35	28	18	16	1.93
1794218--1794310	20	4.6	20	81	2	123	39	23	22	13	1.90
1794240--1794335	41	2.3	41	92	0	156	36	25	20	17	1.94
1794258--1794331	21	3.6	21	72	3	60	33	27	18	20	1.96
1794483--1794539	28	2.0	29	82	6	71	50	8	3	36	1.50
1802141--1802183	2	22.0	2	95	4	79	48	0	0	51	1.00
1803075--1803105	15	2.1	15	100	0	62	45	19	35	0	1.51
1809927--1809952	12	2.2	12	100	0	52	23	7	0	69	1.14
1810113--1810167	27	2.0	27	86	6	76	50	21	0	27	1.49
1810853--1810883	16	1.9	16	100	0	62	22	0	0	77	0.77
1812372--1812418	20	2.4	19	86	10	67	57	8	17	17	1.63
1812160--1812632	181	2.6	182	87	3	668	43	13	16	26	1.85
1812544--1812599	20	2.8	19	76	7	58	55	8	14	21	1.66
1814813--1814876	21	3.0	21	93	0	101	42	10	29	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1814911--1814976	33	2.0	33	90	0	105	28	0	48	22	1.51
1816770--1816818	19	2.6	19	96	0	89	32	2	10	55	1.45
1816953--1818479	200	7.7	200	93	2	2631	36	14	17	31	1.90
1819945--1820008	6	10.7	6	79	0	65	39	9	32	18	1.83
1819945--1820008	12	5.3	12	86	0	92	39	9	32	18	1.83
1819962--1820033	3	24.0	3	76	0	54	36	9	33	20	1.86
1819945--1820017	18	4.1	19	77	10	82	38	10	32	17	1.85
1821236--1822186	183	5.2	183	96	0	1726	35	14	16	33	1.89
1821236--1822696	366	4.1	366	87	7	2242	35	14	16	33	1.89
1822035--1822337	151	2.0	151	97	0	570	33	16	15	34	1.90

Tables:   1   2   3   4   5   6   7   8   9