genome.fa.s8746.2.7.7.80.10.50.1000.9.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: VEPZ01008746.1 Hibiscus syriacus cultivar Beakdansim tig00111835_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2013901

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  9  of  10  ( 1164 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)
1610019--1610307	45	6.4	45	77	4	271	24	16	18	41	1.90
1610026--1610307	135	2.1	135	82	2	334	23	16	18	42	1.89
1610109--1610359	135	1.9	135	80	5	301	24	15	19	40	1.90
1611094--1612114	134	7.6	134	84	1	1186	30	19	18	31	1.96
1611094--1612114	269	3.8	268	84	2	1208	30	19	18	31	1.96
1612213--1612265	2	28.0	2	82	17	69	47	1	0	50	1.12
1612279--1612311	9	3.8	9	84	8	50	75	0	3	21	0.93
1612279--1612311	17	1.9	17	93	0	57	75	0	3	21	0.93
1623461--1623488	3	9.3	3	100	0	56	67	0	0	32	0.91
1625128--1625166	20	2.0	20	89	0	60	48	2	7	41	1.45
1625906--1625969	30	2.2	29	88	2	92	31	20	7	40	1.81
1629986--1630029	17	2.6	16	80	13	52	59	6	0	34	1.24
1636677--1636728	2	27.0	2	92	7	90	50	0	0	50	1.00
1637623--1637695	20	3.7	20	94	0	110	30	21	30	17	1.97
1639185--1639222	19	2.0	20	89	5	60	36	10	5	47	1.61
1641133--1641281	20	7.4	20	93	0	217	33	22	26	17	1.96
1641324--1641404	21	3.8	21	86	6	101	20	18	37	23	1.94
1647102--1647137	9	4.0	9	86	13	56	52	0	0	47	1.00
1659110--1659169	24	2.5	23	89	5	75	36	23	11	28	1.90
1659117--1659169	24	2.2	25	89	6	90	37	26	11	24	1.89
1659123--1659171	24	2.0	24	100	0	98	32	30	12	24	1.92
1663528--1663878	174	2.0	173	95	0	630	26	23	22	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669665--1669709	21	2.1	22	88	12	67	53	0	2	44	1.13
1688507--1689074	81	7.0	81	89	1	816	30	22	11	35	1.90
1688507--1689070	242	2.3	243	89	1	828	31	22	11	34	1.90
1693593--1693713	30	4.0	30	94	0	206	29	17	29	23	1.97
1693593--1693729	30	4.6	30	91	0	202	30	16	29	22	1.96
1696195--1696237	23	1.9	22	81	13	52	32	18	13	34	1.90
1696859--1696903	22	2.0	22	100	0	90	24	13	35	26	1.92
1696863--1696913	22	2.3	22	90	6	77	25	13	35	25	1.93
1698330--1698392	29	2.1	30	85	2	83	33	22	6	38	1.79
1700441--1700521	30	2.7	30	96	0	153	27	13	34	24	1.93
1707837--1707870	16	2.1	16	100	0	68	11	44	5	38	1.65
1710161--1710235	36	2.1	36	97	0	141	18	12	24	45	1.83
1711252--1711299	23	2.1	23	92	0	78	25	25	12	37	1.91
1722304--1722338	2	17.5	2	100	0	70	48	0	0	51	1.00
1723361--1723408	5	9.8	5	80	13	55	83	0	0	16	0.65
1723362--1723403	9	4.6	9	82	5	57	83	0	0	16	0.65
1723336--1723408	29	2.5	28	82	14	78	79	1	1	17	0.88
1723336--1723408	34	2.1	35	85	12	98	79	1	1	17	0.88
1724539--1724589	13	3.9	13	75	17	52	3	23	43	29	1.72
1724747--1724782	18	2.0	18	88	0	54	52	2	0	44	1.15
1724771--1724830	11	5.1	11	77	15	57	45	5	0	50	1.23
1724895--1724924	2	15.5	2	93	6	53	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)
1724950--1725060	42	2.8	39	86	10	161	44	7	3	45	1.49
1725378--1725762	202	1.9	202	83	2	504	27	20	20	32	1.97
1730739--1730784	20	2.3	19	85	14	58	26	15	8	50	1.73
1730481--1730830	180	2.0	172	95	4	628	24	14	14	46	1.82
1736020--1736102	30	2.8	29	80	8	87	40	8	19	31	1.81
1738313--1738514	45	4.5	45	93	0	343	38	7	23	30	1.83
1749518--1749555	14	2.7	14	84	11	51	21	10	28	39	1.86
1749786--1749815	3	9.7	3	92	7	51	0	3	30	66	1.07
1749812--1749889	27	3.0	27	84	7	106	16	34	2	46	1.61
1749815--1749900	25	3.4	25	88	3	118	17	39	1	41	1.57
1749856--1749906	25	2.2	22	83	13	59	15	47	0	37	1.46
1754596--1754636	20	2.0	21	90	4	66	78	2	12	7	1.06
1754640--1754713	7	10.4	7	70	8	51	54	4	1	40	1.28
1754671--1754750	26	3.0	26	90	3	115	48	6	0	45	1.27
1754713--1755043	37	8.7	37	83	8	387	45	8	1	44	1.42
1754739--1754798	11	5.1	11	70	21	50	46	11	0	41	1.40
1754713--1755042	76	4.3	75	85	7	398	45	8	1	44	1.42
1754715--1755042	113	2.9	114	82	5	405	45	8	1	44	1.42
1760176--1760277	28	3.5	29	80	6	107	39	11	12	36	1.80
1760359--1760415	27	2.1	28	86	3	80	40	15	8	35	1.79
1760849--1760945	51	1.9	51	97	0	185	39	0	4	56	1.18
1760849--1760936	24	3.5	25	75	15	101	37	0	4	57	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1760863--1760951	24	3.7	23	67	26	58	38	1	4	56	1.27
1762589--1762663	23	3.3	23	84	0	105	16	25	22	36	1.94
1772600--1772687	35	2.5	36	90	7	144	34	13	23	28	1.93
1772599--1772687	20	4.9	19	74	22	93	33	13	23	29	1.93
1773323--1773367	23	2.0	23	86	0	63	20	28	22	28	1.98
1773381--1773450	24	3.0	23	72	15	63	20	20	22	37	1.95
1773392--1773450	24	2.5	23	80	2	73	20	20	22	37	1.95
1788156--1788200	22	2.0	22	82	0	54	60	2	0	37	1.09
1789899--1790104	102	2.0	102	91	0	331	27	18	16	36	1.93
1797827--1797903	24	3.2	25	76	7	70	32	7	1	58	1.35
1797836--1797879	3	15.0	3	85	4	63	31	4	0	63	1.14
1803172--1803264	47	2.0	46	81	12	109	73	6	19	1	1.11
1804072--1804128	23	2.4	23	80	13	55	38	7	1	52	1.39
1806447--1806497	24	2.1	24	89	7	77	25	1	13	58	1.46
1813087--1813238	36	4.2	36	76	5	153	31	17	12	38	1.87
1813162--1813219	21	3.0	21	62	27	56	27	20	13	37	1.91
1813087--1813238	73	2.1	74	83	4	193	31	17	12	38	1.87
1818411--1818510	2	50.0	2	100	0	200	50	0	0	50	1.00
1825678--1825813	31	4.5	31	85	2	170	60	3	2	33	1.27
1825788--1826004	29	7.3	30	74	11	126	52	0	9	38	1.34
1825942--1826021	29	3.1	24	71	25	65	51	0	6	42	1.27
1825948--1826037	24	3.5	24	79	16	85	51	0	8	40	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1825950--1826063	53	2.2	52	82	4	140	52	0	7	39	1.31
1825678--1826085	30	13.9	29	74	10	260	54	1	6	37	1.34
1839419--1839648	112	2.1	112	86	0	318	29	16	17	36	1.92
1846214--1846443	112	2.1	112	86	1	327	29	14	19	37	1.91
1848870--1848906	19	1.9	19	88	0	56	56	0	32	10	1.34
1849030--1849081	26	2.0	26	100	0	104	42	11	23	23	1.86
1853610--1853695	30	2.9	30	96	0	154	34	16	9	39	1.80
1855782--1855820	16	2.6	15	88	8	53	51	12	0	35	1.40
1858427--1858471	13	3.5	13	81	3	56	48	0	2	48	1.13
1858549--1858632	38	2.2	39	81	10	95	53	3	1	41	1.26
1860457--1860512	24	2.3	24	81	6	60	33	8	5	51	1.56
1860478--1860555	32	2.5	31	79	6	86	38	7	3	50	1.50
1860573--1860747	30	5.9	30	76	9	146	52	0	6	40	1.31
1860954--1861003	20	2.5	20	96	0	91	24	32	22	22	1.98
1864041--1864075	18	1.9	18	94	0	61	57	22	2	17	1.53
1864133--1864556	140	3.0	140	96	0	794	28	12	14	43	1.83
1864526--1864780	20	13.4	20	81	10	266	32	24	18	24	1.97
1864526--1864780	74	3.4	74	85	3	314	32	24	18	24	1.97
1864755--1864798	20	2.2	20	91	0	70	18	15	18	47	1.83
1866333--1866402	21	3.3	21	72	4	70	20	17	37	25	1.94
1866333--1866451	42	2.8	42	80	7	143	23	16	36	23	1.95
1866347--1866449	21	4.9	21	75	0	80	24	17	35	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1866937--1866981	21	2.2	21	88	4	65	53	20	13	13	1.72
1866968--1867036	20	3.5	20	87	0	102	36	26	20	17	1.94
1867080--1867117	20	1.9	20	88	0	58	10	21	18	50	1.76
1867084--1867159	33	2.3	35	90	6	122	14	19	19	46	1.84
1867151--1867199	20	2.5	20	93	0	80	18	20	26	34	1.95
1867186--1867230	21	2.2	21	88	4	65	11	13	22	53	1.71
1869149--1869186	20	1.9	20	88	0	58	50	15	15	18	1.79
1869171--1869275	20	5.6	19	72	16	76	40	20	19	20	1.92
1869155--1869258	53	1.9	54	84	1	138	44	21	18	16	1.87
1869136--1869275	73	1.9	74	91	1	228	42	20	18	17	1.89

Tables:   1   2   3   4   5   6   7   8   9   10