genome.fa.s8185.2.7.7.80.10.50.1000.9.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: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3563405

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  9  of  16  ( 1911 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)
1671735--1671783	19	2.7	17	84	9	53	26	18	30	24	1.98
1671752--1671943	64	3.0	62	80	8	217	28	16	26	29	1.97
1677774--1677810	15	2.4	16	82	13	51	62	0	2	35	1.10
1678295--1678324	15	2.0	15	93	0	51	43	10	20	26	1.83
1710838--1710864	2	13.5	2	100	0	54	51	0	0	48	1.00
1717689--1717717	2	14.5	2	100	0	58	48	0	0	51	1.00
1723375--1723405	15	2.0	16	93	6	55	22	0	0	77	0.77
1723510--1723561	11	5.1	11	71	23	51	53	0	1	44	1.11
1723505--1723575	28	2.4	31	81	11	94	53	0	1	45	1.09
1723524--1723580	18	3.2	17	78	7	60	57	0	0	42	0.98
1723851--1723889	17	2.3	17	100	0	78	15	35	25	23	1.94
1724696--1724825	23	5.7	23	93	0	206	26	27	26	18	1.98
1724703--1724854	46	3.3	45	81	9	166	28	25	25	19	1.99
1725466--1725627	63	2.5	65	83	4	179	25	18	21	34	1.96
1730681--1730747	6	11.2	6	85	6	55	73	2	1	22	1.06
1730713--1730750	6	6.3	6	100	0	76	68	0	0	31	0.90
1734021--1734065	23	2.0	23	86	0	63	31	24	24	20	1.98
1734029--1734078	23	2.2	23	88	0	73	30	24	26	20	1.98
1734770--1734889	64	1.9	63	86	5	170	25	17	20	36	1.94
1735780--1735883	43	2.4	43	82	9	124	35	17	24	23	1.95
1736427--1736561	20	6.7	20	79	9	132	32	28	11	27	1.91
1736428--1736619	40	4.8	40	78	6	138	33	25	10	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1736509--1736620	20	5.6	20	69	9	66	34	21	9	33	1.86
1736776--1736810	18	2.1	17	89	10	54	25	2	0	71	1.00
1739860--1740372	14	35.4	14	71	13	290	49	3	3	43	1.36
1739855--1740372	42	12.9	42	82	11	561	49	3	3	43	1.35
1739856--1740365	8	61.1	8	64	24	141	49	3	3	43	1.35
1746476--1746538	32	2.0	32	83	0	81	38	7	12	41	1.73
1749264--1749378	60	1.9	60	83	3	151	37	14	13	33	1.86
1751095--1751218	43	2.9	43	86	0	167	24	11	5	58	1.53
1751196--1751274	28	2.8	28	88	0	113	31	15	5	48	1.66
1751247--1751378	42	3.1	42	77	6	131	24	18	6	51	1.68
1751291--1751375	43	2.0	43	85	0	116	22	18	4	54	1.62
1751977--1752066	38	2.4	38	100	0	180	50	5	8	35	1.57
1751977--1752082	38	2.8	38	89	0	113	47	9	8	34	1.66
1758932--1758982	22	2.4	22	90	3	86	21	7	45	25	1.79
1759733--1760244	259	2.0	255	87	6	744	41	19	11	27	1.86
1765963--1766013	25	2.0	26	84	7	68	29	3	3	62	1.31
1773127--1773180	26	2.1	26	93	6	92	38	25	31	3	1.74
1775419--1775449	6	5.2	6	96	0	53	32	3	0	64	1.09
1779408--1779455	23	2.1	23	84	0	60	35	10	18	35	1.85
1779882--1779944	23	2.7	23	87	0	90	38	22	4	34	1.75
1780306--1780368	23	2.7	23	95	0	108	39	20	3	36	1.69
1780736--1780798	23	2.7	23	92	0	99	38	20	4	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1779522--1781000	430	3.5	429	96	1	2702	38	12	7	41	1.71
1781220--1781305	39	2.2	39	93	0	145	18	13	18	48	1.80
1781565--1781601	18	2.1	18	89	0	56	51	10	5	32	1.60
1782039--1782101	23	2.7	23	92	0	99	38	20	4	36	1.74
1782443--1782507	25	2.6	25	80	0	85	43	13	9	33	1.76
1784976--1785466	183	2.7	182	94	1	849	33	17	14	34	1.90
1786969--1787049	3	27.0	3	75	0	72	23	34	6	35	1.80
1786973--1787061	12	7.4	12	84	0	88	21	34	7	35	1.82
1786973--1787064	18	5.1	18	77	0	76	20	34	7	36	1.81
1786985--1787061	36	2.1	36	90	0	118	20	35	9	35	1.85
1786973--1787064	6	15.3	6	79	0	67	20	34	7	36	1.81
1788526--1792373	198	19.9	200	85	10	5146	31	17	14	36	1.90
1788837--1790724	200	10.0	178	88	7	898	31	17	14	36	1.90
1788526--1792373	775	5.0	779	94	4	6398	31	17	14	36	1.90
1792488--1792536	19	2.6	19	93	0	80	57	10	2	30	1.43
1794325--1794390	33	2.0	33	90	0	105	22	48	0	28	1.51
1794424--1794467	21	2.1	21	91	0	70	15	31	11	40	1.83
1796958--1797899	228	4.1	228	98	0	1793	39	8	7	44	1.63
1796958--1797899	455	2.1	454	97	1	1789	39	8	7	44	1.63
1801133--1801208	31	2.4	31	77	2	80	14	25	32	27	1.94
1806375--1806450	31	2.4	31	77	2	80	14	25	31	28	1.95
1809554--1809630	33	2.4	33	91	2	129	25	46	14	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809613--1809724	29	3.9	29	85	0	134	23	38	21	16	1.93
1809811--1809856	22	2.1	22	95	0	83	23	36	17	21	1.94
1809872--1809915	23	1.9	23	100	0	88	22	22	27	27	1.99
1810341--1810402	28	2.1	30	91	5	101	30	1	12	54	1.48
1810362--1810463	48	2.2	48	80	16	117	44	1	6	47	1.41
1814234--1814308	23	3.1	24	77	14	82	45	4	6	44	1.48
1814177--1814394	114	1.9	115	85	10	306	43	2	8	45	1.48
1814253--1814450	89	2.2	91	84	11	248	43	2	8	45	1.48
1814243--1814420	24	7.8	22	71	18	91	44	3	6	45	1.46
1814176--1814407	113	2.1	112	82	11	287	44	3	7	44	1.48
1814464--1814488	13	1.9	13	100	0	50	40	0	12	48	1.40
1814527--1814553	10	2.7	10	100	0	54	40	0	18	40	1.51
1814530--1814626	44	2.2	45	96	3	180	41	0	9	49	1.35
1814413--1814852	109	4.2	107	88	6	665	42	0	10	46	1.40
1814481--1814795	162	1.9	165	89	7	496	42	0	10	46	1.40
1814573--1814710	60	2.3	59	89	3	213	43	0	10	44	1.44
1814431--1814648	47	4.4	49	79	15	245	42	0	10	46	1.42
1814740--1814851	46	2.4	46	95	0	206	42	0	9	47	1.36
1817068--1817231	64	2.5	65	83	6	199	25	15	25	32	1.96
1817129--1817167	19	2.1	19	95	0	69	25	15	38	20	1.92
1819358--1819400	16	2.5	17	85	11	52	34	0	16	48	1.46
1819759--1819838	24	3.5	23	75	14	85	30	22	25	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1819737--1819858	44	2.8	43	74	8	113	27	20	26	26	1.99
1825614--1825662	19	2.7	17	84	9	53	26	18	30	24	1.98
1825614--1825775	64	2.5	62	80	7	175	27	16	27	28	1.97
1825740--1825809	19	3.7	19	90	5	99	24	15	37	22	1.93
1825679--1825862	83	2.2	85	83	8	225	25	16	27	30	1.96
1825823--1825862	21	1.9	21	94	0	71	22	15	30	32	1.94
1826770--1826803	15	2.2	16	94	5	61	55	5	0	38	1.24
1827068--1827100	17	1.9	17	100	0	66	42	36	0	21	1.53
1827409--1827462	22	2.5	22	87	3	83	24	18	51	5	1.67
1827486--1827589	29	3.6	29	90	2	129	12	33	34	19	1.89
1827613--1827650	20	1.9	20	100	0	76	31	18	18	31	1.95
1835132--1835209	41	1.9	41	89	0	120	38	23	15	23	1.92
1835135--1835228	20	4.7	20	80	7	91	32	25	17	24	1.96
1835277--1835305	9	3.2	9	100	0	58	24	10	34	31	1.89
1835725--1835818	20	4.7	20	77	7	82	25	17	24	32	1.96
1835807--1835882	21	3.7	21	80	3	100	15	25	18	40	1.90
1835746--1835880	41	3.3	41	83	4	139	20	20	20	37	1.94
1835826--1835892	20	3.3	20	79	4	89	16	23	17	41	1.89
1835807--1835899	41	2.3	41	98	0	177	17	25	18	38	1.92
1835807--1835899	20	4.6	20	77	4	87	17	25	18	38	1.92
1836671--1836723	20	2.7	20	82	5	63	43	5	22	28	1.76
1836923--1836959	2	18.5	2	100	0	74	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850956--1850984	7	4.1	7	100	0	58	13	27	31	27	1.94
1861663--1861692	13	2.2	14	94	5	53	20	23	13	43	1.86
1862081--1862138	23	2.6	23	86	8	75	18	20	8	51	1.72
1868946--1869118	85	2.0	85	100	0	346	33	18	17	30	1.94
1872637--1872697	2	30.5	2	100	0	122	50	0	0	49	1.00
1874813--1874846	16	2.1	17	88	5	52	32	2	5	58	1.37
1879635--1879671	19	1.9	19	89	10	58	32	27	24	16	1.96
1886794--1886837	7	6.4	7	86	5	63	27	31	25	15	1.96
1886834--1886871	5	7.8	5	88	5	60	2	18	57	21	1.52
1886839--1886880	19	2.2	19	83	8	50	7	21	52	19	1.69

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16