genome.fa.s8310.2.7.7.80.10.50.1000.8.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: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3887810

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  8  of  15  ( 1695 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)
1574791--1575501	357	2.0	344	90	7	1099	30	16	16	36	1.91
1575135--1575589	198	2.3	197	93	1	768	30	17	15	37	1.90
1575591--1575639	19	2.6	19	87	6	64	55	8	4	32	1.48
1575599--1576492	447	2.0	446	97	1	1702	31	21	10	36	1.88
1577479--1577951	181	2.6	180	87	1	669	42	13	16	26	1.86
1577860--1577918	20	3.0	19	80	9	73	54	10	15	20	1.70
1577881--1577923	20	2.3	19	88	11	63	51	11	16	20	1.75
1579065--1579538	182	2.6	182	88	0	698	43	13	16	26	1.85
1584124--1585284	353	3.3	354	87	8	1650	41	13	17	28	1.86
1584124--1585268	178	6.5	178	89	6	1631	41	13	17	28	1.86
1584124--1585287	525	2.2	525	88	6	1701	41	12	17	28	1.86
1585394--1586187	175	4.6	177	87	8	1100	28	16	13	41	1.86
1586805--1587262	173	2.6	176	85	6	593	27	16	13	42	1.86
1587581--1587667	41	2.1	41	93	4	149	41	20	22	14	1.89
1594308--1594573	38	7.2	37	75	16	232	43	4	9	42	1.58
1594308--1594573	74	3.6	74	85	4	337	43	4	9	42	1.58
1594456--1594486	14	2.1	15	94	5	55	45	0	9	45	1.36
1594538--1594567	15	1.9	16	93	6	53	43	6	6	43	1.57
1596046--1596110	30	2.2	30	80	2	78	38	7	9	44	1.65
1598571--1598650	16	4.9	16	75	14	58	2	21	1	75	1.00
1598607--1598646	21	1.9	21	94	0	71	0	22	0	77	0.77
1598542--1598650	6	18.3	6	73	16	50	1	18	2	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1598531--1598650	10	11.4	10	74	21	70	3	18	2	75	1.05
1604129--1604177	4	11.8	4	89	6	71	22	0	2	75	0.90
1604132--1604183	21	2.4	21	93	3	86	23	1	1	73	1.04
1605410--1605448	15	2.6	16	84	12	55	33	2	5	58	1.33
1620477--1620509	17	2.0	17	88	5	50	15	12	18	54	1.71
1624231--1624268	17	2.2	17	86	9	51	15	13	0	71	1.16
1624520--1624571	19	2.8	18	88	11	70	76	5	13	3	1.10
1629652--1629696	13	3.5	13	84	3	56	35	35	2	26	1.69
1629715--1629762	17	2.9	16	78	9	51	16	16	0	66	1.25
1631747--1631790	17	2.6	17	85	0	61	38	4	6	50	1.50
1642896--1642931	18	2.0	18	100	0	72	38	27	5	27	1.79
1654901--1654948	23	2.1	23	81	14	55	31	12	18	37	1.88
1662098--1662154	16	3.2	17	85	12	71	0	12	14	73	1.09
1662105--1662163	26	2.2	27	84	3	75	0	10	11	77	0.98
1662098--1662166	9	7.7	9	80	9	52	0	10	14	75	1.05
1663811--1663864	23	2.4	23	84	3	74	24	12	22	40	1.89
1663811--1663857	22	2.1	22	88	4	67	23	14	21	40	1.90
1664294--1664337	20	2.1	21	83	4	54	43	9	11	36	1.72
1677899--1677940	2	21.0	2	85	9	59	47	2	0	50	1.14
1683394--1683431	2	19.0	2	100	0	76	50	0	0	50	1.00
1685244--1685281	18	2.1	18	95	0	67	81	0	15	2	0.80
1685228--1685293	9	7.4	9	73	20	50	78	0	18	3	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1685232--1685289	19	3.0	18	74	20	55	82	0	13	3	0.79
1685887--1685925	14	2.6	15	84	8	53	79	0	5	15	0.90
1701225--1701278	11	4.7	11	77	6	54	1	16	1	79	0.91
1703453--1703501	5	10.0	5	84	4	64	81	0	16	2	0.78
1703423--1703466	19	2.3	18	80	7	52	81	4	2	11	0.92
1703414--1703467	28	1.9	28	85	7	74	77	7	1	12	1.05
1704024--1704076	2	27.0	2	92	3	90	47	0	0	52	1.00
1705033--1705067	18	1.9	18	94	0	61	28	22	8	40	1.84
1705669--1705726	15	3.6	17	78	17	63	68	5	15	10	1.35
1708570--1708605	2	18.5	2	88	5	56	47	2	0	50	1.15
1709854--1709895	22	2.0	21	90	4	66	38	35	2	23	1.68
1710127--1710179	23	2.3	23	100	0	106	22	5	28	43	1.76
1710561--1710585	12	2.1	12	100	0	50	36	24	16	24	1.94
1710823--1710929	44	2.4	44	87	6	144	33	21	6	38	1.79
1711010--1711138	59	2.2	59	87	0	177	27	25	18	27	1.98
1712592--1712635	23	1.9	23	85	0	61	31	22	4	40	1.74
1714542--1714573	11	2.9	11	90	0	55	28	0	43	28	1.55
1716412--1716490	26	3.0	26	96	0	149	30	29	12	27	1.93
1733310--1733491	90	2.0	91	86	1	258	28	22	26	22	1.99
1754376--1754444	33	2.1	33	83	5	86	31	1	36	30	1.67
1756356--1756388	13	2.5	13	100	0	66	27	9	30	33	1.88
1765513--1765543	16	2.0	16	93	6	55	83	3	12	0	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769362--1769411	22	2.2	23	89	3	75	24	4	36	36	1.74
1769376--1769447	11	6.2	11	72	22	58	27	4	36	31	1.76
1769379--1769450	36	2.0	36	100	0	144	27	5	36	30	1.80
1773279--1773329	20	2.6	19	84	3	66	33	11	7	47	1.69
1774416--1774457	22	1.9	22	85	0	57	40	19	30	9	1.83
1778081--1778137	26	2.4	21	74	23	51	66	10	15	7	1.42
1785006--1785054	19	2.5	19	80	6	53	81	2	14	2	0.87
1788377--1788406	13	2.4	13	94	5	53	26	30	0	43	1.55
1803117--1803151	14	2.4	15	85	4	54	5	14	5	74	1.19
1813377--1813525	36	4.1	36	85	1	192	30	4	36	28	1.77
1813377--1813517	72	2.0	72	88	2	212	30	4	36	28	1.78
1813392--1813525	72	1.9	72	90	0	214	29	5	37	27	1.79
1815324--1815370	24	2.0	24	83	8	60	29	23	17	29	1.97
1817182--1817330	36	4.1	36	87	0	208	30	4	36	28	1.77
1817185--1817322	72	1.9	72	92	0	231	31	5	35	28	1.79
1817677--1817726	19	2.5	20	87	3	66	46	6	14	34	1.69
1819625--1819679	21	2.7	19	78	15	58	78	3	16	1	0.98
1822229--1822280	24	2.2	25	79	10	63	59	15	17	7	1.58
1823457--1823504	24	2.0	24	83	0	60	39	12	16	31	1.86
1831152--1831203	24	2.2	25	79	10	63	59	15	17	7	1.58
1832353--1832400	24	2.0	24	83	0	60	39	12	16	31	1.86
1837771--1837904	35	3.9	35	81	9	161	30	5	36	27	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1837808--1837904	35	2.7	36	90	3	169	31	5	36	26	1.79
1841432--1841476	22	2.2	20	84	8	54	0	13	6	80	0.91
1841876--1841936	13	4.8	13	72	25	51	27	3	34	34	1.73
1841857--1841962	36	2.9	36	88	4	160	29	4	33	32	1.78
1843642--1843692	20	2.6	20	90	3	77	35	15	5	43	1.71
1845452--1845485	10	3.6	10	84	15	54	0	11	0	88	0.52
1845452--1845495	18	2.5	17	92	3	70	0	13	0	86	0.57
1847424--1847459	12	3.0	12	92	8	56	16	22	0	61	1.35
1847701--1847747	14	3.3	14	77	11	51	78	2	14	4	0.99
1862601--1862631	12	2.6	12	94	0	53	29	16	0	54	1.42
1866826--1866893	35	1.9	36	90	3	111	29	2	35	32	1.73
1871813--1871897	11	7.2	11	72	22	66	31	36	3	28	1.74
1871810--1871914	36	2.9	36	95	1	185	30	36	4	28	1.78
1872353--1872399	14	3.1	15	75	12	51	72	6	19	2	1.17
1876290--1876374	11	7.2	11	72	22	66	31	36	3	28	1.74
1876287--1876391	36	2.9	36	95	1	185	30	36	4	28	1.78
1882224--1882255	16	2.1	15	94	5	55	12	40	12	34	1.81
1890794--1890833	20	1.9	20	85	10	53	32	7	32	27	1.85
1893698--1893722	11	2.3	11	100	0	50	16	36	8	40	1.77
1895013--1895052	20	1.9	20	85	10	53	32	7	32	27	1.85
1895259--1895293	15	2.4	14	90	4	52	51	2	2	42	1.31
1897518--1897650	69	1.9	68	89	1	203	25	26	15	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1902848--1902891	22	2.0	22	90	0	70	34	38	2	25	1.68
1907145--1907186	20	2.2	20	95	4	77	38	11	4	45	1.62
1908721--1908762	17	2.5	17	92	0	66	30	14	9	45	1.77
1909257--1909315	29	2.0	29	96	0	109	38	15	13	32	1.86
1910763--1910833	6	11.5	6	88	5	106	15	0	50	33	1.44
1912704--1912885	90	2.0	91	90	1	285	27	23	28	20	1.99
1912845--1912912	26	2.6	26	100	0	136	25	19	38	17	1.93
1914980--1915026	14	3.1	15	75	12	51	72	6	19	2	1.17
1915171--1915209	15	2.6	15	83	0	60	12	12	0	74	1.08
1918840--1918901	13	4.9	13	72	18	51	32	37	1	29	1.67

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15