genome.fa.s9001.2.7.7.80.10.50.1000.9.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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   

This is table  9  of  24  ( 2777 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)
1741064--1741120	18	3.0	19	75	14	55	52	1	0	45	1.11
1741031--1741114	43	2.0	40	82	11	98	53	2	0	44	1.13
1741061--1741142	39	2.1	40	84	6	105	50	1	1	47	1.16
1743688--1743799	35	3.2	35	86	5	147	41	20	0	36	1.59
1744815--1744927	35	3.2	34	88	5	163	33	0	23	42	1.60
1746530--1746575	21	2.2	21	84	0	56	4	23	30	41	1.74
1751406--1751487	40	2.0	40	100	0	164	26	15	17	40	1.89
1752938--1753018	3	27.0	3	100	0	162	33	0	66	0	0.92
1754399--1754440	22	1.9	22	95	0	75	26	19	9	45	1.80
1754394--1754447	22	2.5	22	82	11	74	25	24	9	40	1.85
1755037--1755122	36	2.4	37	75	22	103	36	2	10	51	1.49
1759593--1759645	19	2.8	19	100	0	106	30	26	16	26	1.97
1759665--1759711	20	2.3	20	88	0	76	31	23	25	19	1.98
1767145--1767169	3	8.3	3	100	0	50	0	68	0	32	0.90
1768169--1768256	45	1.9	46	90	2	142	27	23	19	29	1.98
1770449--1770520	29	2.5	29	81	14	87	62	2	1	33	1.18
1770486--1770519	17	1.9	18	88	5	52	64	5	0	29	1.17
1772891--1772965	37	2.0	39	82	15	95	45	1	5	48	1.33
1780008--1780062	22	2.5	22	78	18	62	32	3	14	49	1.61
1793206--1793302	23	4.2	23	79	0	113	34	22	24	18	1.96
1802399--1802452	18	2.9	19	83	8	67	61	1	0	37	1.07
1803134--1803192	21	2.9	20	76	14	59	35	0	1	62	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1806527--1806705	35	5.1	35	70	9	132	26	29	9	35	1.88
1807999--1808086	4	21.0	4	75	9	77	28	3	2	65	1.20
1807954--1808086	30	4.2	30	75	13	106	29	2	2	66	1.16
1807963--1808037	20	3.6	21	80	10	82	30	0	2	66	1.05
1807985--1808079	34	2.9	34	81	10	108	31	3	1	64	1.16
1809642--1809704	32	2.0	32	83	0	81	19	9	9	61	1.53
1809749--1809799	18	2.9	17	74	5	57	37	3	5	52	1.44
1813041--1813109	3	24.0	3	85	8	99	34	0	0	65	0.93
1813039--1813108	14	5.1	14	81	13	92	32	0	0	67	0.91
1813041--1813109	11	6.0	12	83	10	99	34	0	0	65	0.93
1821551--1821594	22	2.0	22	100	0	88	31	9	22	36	1.86
1827679--1827979	122	2.5	122	96	0	548	39	15	20	24	1.92
1827868--1828084	105	2.1	105	94	0	380	38	17	20	23	1.93
1827973--1828345	122	3.2	120	86	6	500	38	15	18	26	1.91
1827746--1828345	227	2.6	227	89	2	837	38	16	19	26	1.92
1828144--1828345	109	1.9	109	90	2	325	38	15	19	26	1.91
1828259--1828621	139	2.6	137	84	5	439	39	14	19	27	1.90
1828259--1828618	137	2.6	138	83	6	446	39	14	19	26	1.90
1828854--1828931	3	27.0	3	87	7	117	33	0	1	65	1.01
1829717--1829748	15	2.1	16	94	5	57	53	0	34	12	1.39
1830487--1830513	2	13.5	2	100	0	54	51	0	0	48	1.00
1835994--1836121	31	4.1	31	78	6	125	28	17	20	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1835993--1836121	63	2.1	61	84	7	170	28	17	20	34	1.95
1840407--1840527	63	1.9	62	86	5	172	30	17	19	32	1.95
1840401--1840528	31	4.1	31	77	7	134	29	17	19	33	1.95
1843656--1843814	63	2.5	63	81	0	174	30	19	23	25	1.98
1843783--1843831	19	2.6	19	90	0	71	22	10	34	32	1.88
1844831--1844958	31	4.1	31	73	6	105	30	14	19	35	1.92
1846220--1846326	39	2.7	40	79	2	119	32	25	21	20	1.97
1848062--1848183	60	2.0	60	82	0	145	57	9	13	19	1.63
1848069--1848191	30	4.1	30	84	0	129	57	7	13	21	1.60
1849005--1849038	17	2.1	17	88	5	52	5	38	2	52	1.41
1851040--1851098	10	5.7	10	78	7	55	22	5	3	69	1.23
1851040--1851098	21	2.8	20	75	7	55	22	5	3	69	1.23
1852597--1852638	21	2.0	21	85	0	57	50	0	0	50	1.00
1852611--1852663	22	2.3	22	83	9	61	49	0	1	49	1.12
1856427--1856464	20	1.9	20	89	10	60	65	5	2	26	1.27
1856452--1856491	21	1.9	21	85	10	55	62	0	0	37	0.95
1856453--1856515	15	4.4	15	76	7	60	60	0	0	39	0.97
1858663--1858721	27	2.2	27	81	0	64	32	3	6	57	1.41
1860936--1860989	17	3.2	17	91	0	90	14	27	27	29	1.95
1860993--1861055	22	2.9	21	77	17	65	82	3	6	7	0.93
1861112--1861472	40	9.9	38	77	19	344	43	6	3	46	1.47
1861266--1861394	28	4.4	28	75	23	124	44	6	4	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1861226--1861427	64	3.1	64	93	3	334	43	5	4	46	1.48
1867880--1867930	20	2.5	21	81	12	61	76	1	9	11	1.10
1867911--1868033	31	3.9	30	76	13	113	71	4	7	17	1.24
1868067--1868091	3	8.3	3	100	0	50	68	0	0	32	0.90
1869298--1869327	13	2.3	13	94	0	51	80	0	3	16	0.85
1869311--1869347	20	1.9	20	94	5	67	81	2	0	16	0.81
1869298--1869350	16	3.3	15	80	12	61	79	1	1	16	0.92
1869391--1869457	34	1.9	36	87	6	102	50	5	2	40	1.42
1869443--1869473	2	15.5	2	100	0	62	48	0	0	51	1.00
1869407--1869506	50	2.1	46	88	7	146	48	5	3	44	1.40
1869461--1869516	27	2.0	27	86	10	76	44	7	3	44	1.48
1869453--1869684	38	6.4	38	73	17	163	45	6	3	44	1.44
1869516--1869580	28	2.4	28	90	7	100	46	6	3	44	1.44
1869454--1869657	103	2.0	104	83	6	263	45	6	2	44	1.45
1869565--1869603	15	2.6	15	84	12	53	46	5	0	48	1.24
1869541--1869692	39	4.0	37	77	13	132	46	7	2	43	1.45
1875068--1875109	21	2.0	21	86	9	59	47	4	0	47	1.23
1878805--1878858	28	1.9	28	96	0	99	22	18	7	51	1.70
1881215--1881255	20	2.0	20	90	0	64	29	24	9	36	1.87
1881262--1881335	20	3.7	19	74	15	69	27	28	10	33	1.90
1881244--1881335	40	2.3	40	90	0	139	28	27	11	32	1.92
1881259--1881357	40	2.5	40	85	6	112	28	29	10	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1881322--1881410	21	4.3	20	77	4	79	33	25	10	30	1.89
1881322--1881419	41	2.4	40	80	8	108	32	25	11	30	1.91
1881503--1881549	18	2.5	18	86	6	58	29	21	10	38	1.87
1881688--1881725	16	2.5	15	84	12	51	28	5	0	65	1.14
1882325--1882358	12	2.8	12	95	0	59	58	26	0	14	1.36
1882484--1882537	24	2.2	24	86	0	72	24	16	18	40	1.90
1882708--1882732	12	2.1	12	100	0	50	72	0	28	0	0.86
1883609--1883640	14	2.3	14	100	0	64	34	12	31	21	1.91
1884816--1884851	18	2.0	18	94	0	63	55	25	2	16	1.55
1886560--1886657	21	4.7	21	87	3	135	24	18	35	21	1.95
1886721--1886766	4	11.5	4	85	0	65	69	2	2	26	1.11
1886914--1887035	63	1.9	63	81	6	149	30	34	14	20	1.93
1886989--1887038	21	2.4	21	86	0	73	34	34	14	18	1.90
1888666--1888711	20	2.3	20	92	0	74	58	19	10	10	1.61
1888675--1888718	20	2.2	20	95	0	79	59	15	15	9	1.61
1888735--1888773	20	2.0	20	89	0	60	12	12	17	56	1.67
1888737--1888780	20	2.2	20	83	0	52	13	13	18	54	1.71
1890747--1890772	11	2.4	11	100	0	52	26	0	7	65	1.20
1896124--1898095	5	399.4	5	95	3	3623	19	0	20	59	1.37
1899172--1899220	20	2.5	20	96	0	89	10	10	44	34	1.72
1899534--1900005	237	2.0	236	92	2	788	36	13	12	37	1.82
1904977--1905020	20	2.2	20	83	0	52	38	34	6	20	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1906602--1906877	150	1.8	149	80	8	328	30	19	11	38	1.87
1912180--1912258	39	2.0	39	95	0	140	25	22	3	48	1.68
1921165--1921281	32	3.5	32	78	10	110	18	13	30	36	1.90
1921185--1921294	32	3.4	32	78	5	123	20	14	30	35	1.92
1921514--1921573	30	2.0	30	90	0	93	33	5	11	50	1.61
1922056--1922095	16	2.5	16	88	8	55	32	2	0	65	1.06
1925462--1925518	17	3.4	17	80	4	71	17	3	26	52	1.60
1930790--1930823	17	2.0	17	100	0	68	29	41	5	23	1.78
1931913--1931958	20	2.3	20	88	0	65	28	26	15	30	1.96
1940794--1940819	13	2.0	13	100	0	52	23	23	23	30	1.99

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