genome.fa.s8702.2.7.7.80.10.50.1000.8.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: VEPZ01008702.1 Hibiscus syriacus cultivar Beakdansim tig00111741_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3201804

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

This is table  8  of  14  ( 1641 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)
1565533--1565575	2	21.5	2	100	0	86	51	0	0	48	1.00
1569295--1569348	18	2.9	18	71	17	56	55	1	7	35	1.39
1581712--1581751	19	2.0	20	85	4	55	77	5	5	12	1.09
1594805--1594859	28	1.9	28	85	10	76	67	5	16	10	1.39
1596533--1596570	20	1.9	20	89	10	60	36	21	15	26	1.93
1598146--1598234	46	2.0	46	93	2	153	31	23	5	39	1.78
1598154--1598248	46	2.2	42	85	10	122	28	25	6	40	1.80
1598623--1598750	64	2.0	64	100	0	256	45	17	6	31	1.73
1606903--1606955	10	5.4	10	82	14	58	0	13	3	83	0.79
1606903--1606970	10	6.8	9	76	17	55	0	14	4	80	0.85
1606913--1606968	28	2.0	29	82	3	69	0	14	5	80	0.88
1609640--1609727	46	1.9	46	95	2	160	31	22	6	38	1.81
1613626--1613650	11	2.3	11	100	0	50	8	8	0	84	0.79
1613626--1613680	20	2.8	19	75	22	51	5	12	1	80	0.97
1624160--1624331	90	1.9	88	90	2	272	45	6	11	36	1.67
1624721--1624752	14	2.3	14	94	0	55	46	21	15	15	1.83
1632073--1632137	27	2.4	27	86	0	94	47	23	3	26	1.66
1634480--1634576	39	2.5	39	86	5	144	42	21	6	29	1.77
1634466--1634576	39	2.9	39	83	4	127	41	23	5	29	1.76
1636156--1636268	57	2.0	57	92	0	190	32	17	20	29	1.96
1636871--1636981	45	2.5	45	86	0	150	27	14	18	38	1.90
1644828--1644929	45	2.3	45	85	0	141	19	24	26	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662265--1662338	6	11.8	6	84	9	87	0	18	1	79	0.80
1662265--1662338	26	3.0	24	81	16	96	0	18	1	79	0.80
1662265--1662338	20	3.9	19	86	11	100	0	18	1	79	0.80
1662264--1662354	17	5.2	17	78	13	87	2	16	2	79	0.94
1672931--1673102	90	1.9	88	89	4	265	45	6	10	37	1.66
1673497--1673528	14	2.3	14	94	0	55	46	21	15	15	1.83
1680362--1680423	32	1.9	32	100	0	124	20	22	24	32	1.98
1680406--1680505	40	2.5	40	79	7	105	26	17	21	36	1.94
1681612--1681708	39	2.5	39	86	5	144	42	21	6	29	1.77
1681598--1681708	39	2.9	39	83	4	127	41	23	5	29	1.76
1683286--1683398	57	2.0	57	92	0	190	32	15	21	30	1.95
1684003--1684113	45	2.5	45	87	0	159	27	14	18	39	1.90
1691911--1692017	45	2.4	45	84	4	144	19	26	26	28	1.99
1705437--1705541	52	2.0	52	100	0	210	28	15	24	31	1.95
1708965--1709028	31	2.1	31	84	0	83	29	32	28	9	1.88
1711563--1711600	15	2.5	15	95	0	67	36	0	36	26	1.57
1712286--1712320	16	2.2	16	94	0	61	34	8	20	37	1.83
1712924--1712973	15	3.3	15	100	0	100	38	8	6	48	1.57
1715608--1715672	18	3.6	18	91	0	94	20	47	20	12	1.81
1715631--1715678	13	3.3	13	75	25	51	16	45	22	14	1.84
1718178--1718260	24	3.5	23	78	6	85	20	10	16	51	1.74
1718420--1718444	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1721826--1721936	24	4.6	24	81	0	141	19	10	15	54	1.70
1721826--1721932	12	8.9	12	68	11	58	18	11	15	54	1.71
1723939--1724051	60	1.9	60	86	0	163	29	16	19	34	1.94
1725140--1725233	40	2.3	40	84	10	113	40	23	17	19	1.91
1725140--1725233	20	4.7	20	81	13	97	40	23	17	19	1.91
1725222--1725293	20	3.6	20	82	0	99	43	18	16	22	1.88
1725203--1725294	40	2.3	40	92	0	148	41	18	17	22	1.90
1725555--1725623	21	3.3	21	87	4	95	39	23	18	18	1.93
1725550--1725645	41	2.3	41	77	13	108	41	23	16	17	1.89
1725617--1725655	20	2.0	20	100	0	78	46	25	15	12	1.81
1726181--1726286	20	5.3	20	89	0	158	50	20	17	11	1.77
1726310--1726415	20	5.3	20	82	0	131	12	16	18	51	1.75
1728558--1728674	21	5.6	21	73	8	94	22	34	22	21	1.97
1728565--1728674	42	2.6	42	85	0	139	22	34	22	20	1.97
1729977--1730145	67	2.6	67	83	8	204	28	2	17	51	1.58
1730203--1730279	20	3.8	20	72	6	75	40	19	16	23	1.91
1730532--1730567	18	2.0	18	94	0	63	16	2	25	55	1.55
1734850--1734910	31	2.0	31	87	6	88	31	21	31	16	1.95
1735880--1735953	28	2.6	29	89	8	116	44	25	0	29	1.54
1735961--1735994	13	2.6	13	90	9	52	20	20	38	20	1.94
1736713--1736756	18	2.3	18	84	11	52	45	13	29	11	1.79
1738193--1738239	24	2.0	23	87	4	67	23	14	0	61	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1738433--1738489	29	2.0	29	96	0	105	49	19	0	31	1.49
1738492--1738527	7	5.3	7	90	6	56	27	22	33	16	1.95
1738492--1738527	13	2.6	14	86	4	56	27	22	33	16	1.95
1739450--1739486	14	2.6	15	87	12	60	13	32	8	45	1.73
1739524--1739558	2	17.5	2	100	0	70	48	0	0	51	1.00
1740878--1740940	10	5.9	10	76	10	54	79	3	15	1	0.94
1740878--1740949	9	7.4	9	75	12	63	79	2	16	1	0.93
1740897--1740949	20	2.8	20	80	16	67	79	0	20	0	0.74
1744174--1744717	91	6.0	92	85	5	689	37	15	21	25	1.93
1744746--1744924	91	2.0	92	92	2	299	34	17	23	24	1.96
1744555--1745042	207	2.4	207	91	0	780	37	15	22	25	1.93
1746562--1746607	22	2.1	22	84	8	58	17	6	6	69	1.32
1748530--1748562	2	16.5	2	100	0	66	48	0	0	51	1.00
1749633--1749676	17	2.6	17	92	3	72	47	18	4	29	1.68
1755644--1755716	35	2.1	36	84	7	96	36	20	23	19	1.95
1755645--1755715	20	3.9	17	75	20	65	36	19	23	19	1.95
1756549--1756609	21	2.9	21	82	0	68	19	21	29	29	1.98
1757303--1757337	17	2.1	17	89	5	54	42	2	14	40	1.60
1759941--1759975	17	2.1	17	88	0	52	42	5	11	40	1.65
1765028--1765154	59	2.1	59	81	11	143	39	16	14	29	1.89
1765443--1765496	27	2.0	27	85	7	74	46	5	7	40	1.55
1766915--1767150	37	6.3	37	81	11	239	44	3	5	45	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769019--1769060	17	2.4	18	76	4	50	50	2	4	42	1.36
1770134--1770612	113	4.1	113	76	11	450	29	19	13	37	1.90
1770189--1770626	234	1.8	239	87	4	654	29	19	13	37	1.90
1772125--1772192	10	7.0	10	75	18	63	0	20	0	79	0.73
1772128--1772207	16	5.0	16	78	15	78	1	20	0	78	0.81
1772127--1772207	39	2.0	42	88	7	123	1	19	0	79	0.81
1772126--1772195	26	2.7	27	82	12	92	0	18	0	81	0.69
1783626--1783667	17	2.4	18	76	4	50	52	2	2	42	1.27
1785027--1785084	3	19.7	3	86	10	84	65	0	0	34	0.93
1785014--1785085	9	7.9	10	82	13	77	61	0	0	38	0.96
1785267--1785298	2	16.0	2	93	0	55	46	0	3	50	1.17
1785313--1785415	14	7.3	14	65	14	50	16	3	3	75	1.10
1788768--1788954	95	2.0	96	88	5	281	32	18	17	31	1.94
1790112--1790832	84	8.7	84	81	4	775	32	24	18	24	1.97
1790112--1790832	164	4.3	168	85	3	782	32	24	18	24	1.97
1791510--1791736	37	6.1	35	83	10	258	46	5	6	42	1.51
1791511--1791745	74	3.2	73	83	8	289	45	5	5	42	1.51
1791865--1791891	14	1.9	14	100	0	54	37	0	3	59	1.15
1791863--1791908	11	4.3	11	83	8	51	30	0	2	67	1.03
1792563--1792601	18	2.2	18	100	0	78	30	25	33	10	1.89
1793127--1793165	14	2.6	14	88	12	51	12	5	2	79	1.00
1793228--1793328	46	2.2	45	80	18	111	20	1	1	75	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1793228--1793357	61	2.2	59	78	13	133	18	3	3	75	1.07
1797887--1797915	2	14.5	2	100	0	58	51	0	0	48	1.00
1800772--1800830	21	2.8	21	76	0	73	22	38	28	10	1.86
1800938--1801299	122	3.0	122	95	0	618	26	16	25	31	1.96
1809901--1810612	361	2.0	361	94	0	1264	29	13	21	34	1.92
1821481--1822387	453	2.0	451	89	2	1374	40	15	17	26	1.90
1828975--1829011	17	2.1	18	85	14	51	45	5	32	16	1.70
1838505--1838544	20	2.0	21	85	14	57	42	5	7	45	1.54
1838844--1838895	19	2.7	19	100	0	104	30	30	21	17	1.96
1844716--1844771	22	2.7	21	83	10	62	30	23	17	28	1.97

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