genome.fa.s9605.2.7.7.80.10.50.1000.8.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   31   32   
          33   34   35   

This is table  8  of  35  ( 4090 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)
1574320--1574361	21	2.0	21	86	9	59	26	16	4	52	1.63
1582804--1582828	6	4.2	6	100	0	50	52	16	32	0	1.44
1584667--1584694	14	2.0	14	100	0	56	14	35	35	14	1.86
1586880--1586936	26	2.2	26	96	0	105	47	19	12	21	1.81
1591443--1591835	193	2.0	192	86	2	547	39	10	11	37	1.77
1592725--1592769	18	2.4	19	85	3	56	62	6	0	31	1.21
1594300--1594324	13	1.9	13	100	0	50	24	8	24	44	1.80
1595023--1595060	20	1.9	20	88	0	58	60	0	2	36	1.11
1595486--1595525	16	2.5	17	80	19	50	32	2	0	65	1.06
1596191--1596239	22	2.2	22	85	7	64	44	8	0	46	1.33
1596203--1596253	22	2.4	22	83	9	61	41	9	0	49	1.36
1608405--1608667	56	4.7	56	87	1	359	35	17	10	37	1.83
1609097--1609146	20	2.5	20	90	0	73	20	26	16	38	1.92
1611928--1611961	15	2.3	15	89	0	50	76	0	14	8	1.01
1611937--1611975	20	1.9	21	84	5	53	76	2	10	10	1.10
1612247--1612293	22	2.1	22	84	11	60	70	0	6	23	1.10
1612261--1612305	21	2.1	21	84	8	56	75	2	6	15	1.11
1612337--1612371	2	17.5	2	100	0	70	51	0	0	48	1.00
1612371--1612421	23	2.2	22	80	19	52	70	0	7	21	1.12
1613691--1613776	34	2.5	34	88	3	129	31	4	17	46	1.68
1613691--1613788	34	2.8	33	80	10	108	31	6	17	44	1.73
1613910--1614277	102	3.6	102	83	4	386	37	13	19	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1614025--1614097	37	2.0	37	94	0	128	35	16	21	26	1.94
1614181--1614343	65	2.5	66	80	5	170	36	11	19	31	1.88
1613952--1614476	269	2.0	267	91	0	861	37	13	18	30	1.89
1614220--1614425	102	2.0	103	91	0	333	36	13	17	32	1.88
1614054--1614425	167	2.2	166	84	2	467	37	13	18	30	1.89
1614230--1614462	102	2.3	102	84	1	270	38	13	18	30	1.89
1614505--1614647	72	1.9	74	86	8	202	37	12	20	28	1.90
1615872--1615911	17	2.4	17	100	0	80	27	10	25	37	1.88
1618279--1618418	64	2.2	63	81	8	151	38	18	17	25	1.93
1618872--1619197	103	3.2	103	96	0	598	25	11	24	37	1.90
1619209--1619263	23	2.4	23	81	0	65	18	27	25	29	1.98
1625973--1626298	103	3.2	103	95	0	580	26	12	24	36	1.91
1626310--1626377	23	3.0	23	77	0	64	22	22	25	30	1.99
1631089--1631127	14	2.8	14	84	0	51	76	0	15	7	0.99
1636185--1636270	28	3.1	28	62	18	70	29	17	11	41	1.84
1635848--1636327	56	8.6	56	90	1	702	34	17	10	36	1.85
1636733--1636769	20	1.9	20	88	5	58	21	32	10	35	1.88
1640591--1640637	3	15.7	3	100	0	94	68	0	0	31	0.90
1651996--1652054	21	2.6	24	86	10	88	30	18	18	32	1.95
1663982--1664082	30	3.5	30	79	8	118	21	38	12	26	1.90
1663990--1664076	27	3.1	26	78	12	84	21	39	14	24	1.91
1675245--1675292	23	2.1	23	84	0	60	35	10	18	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1675711--1675772	22	2.7	23	90	2	90	38	19	4	37	1.73
1675701--1675772	23	3.2	22	84	4	90	40	20	4	34	1.72
1676194--1676277	39	2.2	39	93	0	141	17	14	19	48	1.81
1676530--1676566	18	2.1	18	89	0	56	51	10	5	32	1.60
1677002--1677060	23	2.6	23	94	0	100	40	16	5	37	1.71
1679539--1680563	182	5.6	183	96	1	1882	33	16	13	35	1.88
1681821--1683088	391	3.2	393	98	1	2417	32	16	15	35	1.90
1681821--1683088	196	6.5	197	98	1	2412	32	16	15	35	1.90
1683210--1683258	19	2.6	19	93	0	80	57	10	2	30	1.43
1687416--1687457	19	2.3	18	92	8	68	21	16	11	50	1.77
1687421--1687466	19	2.4	19	81	3	65	19	17	10	52	1.74
1687588--1687633	20	2.3	20	89	10	76	17	17	10	54	1.70
1688261--1688300	17	2.4	17	100	0	80	37	25	12	25	1.91
1689409--1689509	30	3.5	30	79	8	118	21	38	12	26	1.90
1689417--1689503	27	3.1	26	78	12	84	21	39	14	24	1.91
1704754--1704792	21	1.9	21	94	5	71	25	12	23	38	1.90
1710859--1710903	22	2.0	23	86	8	65	51	13	0	35	1.41
1716800--1716902	21	4.8	21	82	7	100	25	28	26	20	1.99
1720348--1720387	21	1.9	21	89	0	62	82	5	10	2	0.91
1735414--1735470	25	2.3	25	96	0	105	36	10	10	42	1.74
1743264--1743343	20	3.8	21	72	18	67	25	32	25	17	1.97
1746627--1746673	2	23.5	2	91	0	76	0	0	44	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750017--1750080	30	2.2	29	83	8	76	32	10	4	51	1.58
1751362--1751400	19	2.1	19	90	9	62	20	5	17	56	1.60
1758780--1758818	20	2.0	20	89	0	60	46	5	17	30	1.70
1763560--1763623	33	2.0	32	87	9	94	35	21	20	21	1.96
1764019--1764159	47	3.3	43	82	11	166	31	20	7	40	1.79
1764210--1764335	47	2.8	45	85	7	166	32	19	7	39	1.81
1764416--1764496	40	2.0	40	80	4	92	25	24	22	27	2.00
1778671--1778859	66	2.8	66	81	5	229	28	18	13	39	1.89
1778801--1779007	102	2.0	104	82	5	251	30	19	12	37	1.88
1778566--1779022	234	1.9	235	85	2	632	29	19	13	37	1.90
1779563--1779941	207	1.8	207	88	3	575	34	23	15	25	1.95
1779509--1779954	104	4.4	103	80	6	482	34	22	16	25	1.95
1782193--1782305	56	2.0	56	100	0	226	36	19	21	23	1.95
1785652--1786171	55	9.5	55	88	1	767	35	11	19	33	1.88
1791638--1792220	55	10.7	55	88	1	825	37	12	18	32	1.87
1792948--1792976	9	3.2	9	100	0	58	58	0	20	20	1.39
1796814--1796857	18	2.4	18	100	0	88	31	0	11	56	1.35
1798946--1799003	21	2.8	20	79	5	71	37	22	12	27	1.89
1799436--1799468	17	1.9	17	100	0	66	15	24	6	54	1.63
1801121--1801181	21	3.0	21	78	2	70	37	21	11	29	1.88
1803486--1803686	49	4.0	48	84	7	231	29	18	12	39	1.88
1809211--1809243	14	2.4	14	85	14	50	48	24	0	27	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1810217--1810289	20	3.7	20	96	0	128	21	24	1	52	1.55
1810690--1810716	9	3.0	9	100	0	54	33	33	22	11	1.89
1811419--1811567	49	3.0	49	88	2	219	28	18	15	38	1.91
1816085--1816142	20	3.0	20	87	9	84	32	8	20	37	1.83
1820248--1820294	22	2.2	21	84	3	58	59	12	10	17	1.60
1822174--1822258	22	3.8	23	74	13	61	34	15	22	28	1.94
1826193--1826383	82	2.3	82	84	3	240	28	21	12	37	1.89
1826347--1826409	26	2.4	26	78	0	81	26	23	4	44	1.73
1826269--1826491	107	2.1	109	86	1	306	27	21	11	39	1.88
1826380--1826606	82	2.8	80	85	4	301	29	22	11	36	1.90
1832663--1832720	20	2.9	20	84	5	64	29	15	13	41	1.86
1843768--1843823	2	28.0	2	100	0	112	50	0	0	50	1.00
1846434--1846488	27	2.0	27	92	0	92	40	0	18	41	1.50
1847207--1847236	15	2.1	14	93	6	51	60	0	0	40	0.97
1848727--1848920	5	38.8	5	99	0	370	40	18	0	41	1.51
1848725--1849020	5	58.8	5	93	2	198	38	12	0	48	1.45
1848887--1849012	46	2.7	46	84	8	166	37	3	1	57	1.24
1848902--1849021	41	2.9	41	83	4	163	36	0	2	60	1.16
1848940--1849041	46	2.2	46	80	3	107	37	0	2	58	1.20
1850801--1851001	101	2.0	101	87	1	287	31	23	17	27	1.97
1852880--1852928	10	4.8	11	78	16	61	16	18	26	38	1.91
1852881--1852935	9	5.6	10	79	12	69	14	20	29	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852880--1852935	19	2.9	19	82	12	69	16	19	28	35	1.93
1852938--1852970	13	2.5	13	95	0	57	15	48	21	15	1.81
1852989--1853064	29	2.6	29	85	0	89	22	9	26	42	1.83
1859975--1860023	10	4.8	11	73	16	52	16	20	26	36	1.93
1859976--1860030	9	5.6	10	75	12	60	14	21	29	34	1.93
1859975--1860030	19	2.9	19	77	12	60	16	21	28	33	1.95
1860043--1860073	13	2.4	13	100	0	62	16	48	16	19	1.81
1860033--1860098	18	3.5	18	91	6	96	15	46	18	19	1.83
1860103--1860169	29	2.3	29	84	5	82	22	10	25	41	1.85
1865906--1867107	136	8.9	136	87	1	1584	27	22	16	32	1.96

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   31   32   
          33   34   35