genome.fa.s8003.2.7.7.80.10.50.1000.8.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: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3297763

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

This is table  8  of  14  ( 1618 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)
1555115--1555195	36	2.2	37	86	4	112	43	19	4	32	1.73
1556176--1556247	30	2.4	30	76	4	74	47	15	4	33	1.64
1558484--1558597	33	3.5	33	92	0	183	21	8	49	20	1.76
1571804--1571842	20	1.9	21	84	5	53	56	5	2	35	1.35
1572476--1572520	21	2.3	19	82	14	56	31	2	2	64	1.18
1579882--1579980	10	10.3	9	79	12	90	15	28	27	29	1.96
1579883--1579980	19	5.1	19	79	16	87	14	28	27	29	1.95
1579881--1579955	29	2.5	30	89	8	118	17	26	26	29	1.97
1579882--1579980	29	3.4	28	84	8	101	15	28	27	29	1.96
1579977--1580034	5	10.8	5	78	14	62	18	51	22	6	1.70
1579977--1580041	22	3.0	22	100	0	130	18	49	23	9	1.76
1580031--1580068	7	5.4	7	100	0	76	15	28	28	26	1.96
1587229--1587327	10	10.3	9	79	12	90	15	28	27	29	1.96
1587230--1587327	19	5.1	19	79	16	87	14	28	27	29	1.95
1587228--1587302	29	2.5	30	89	8	118	17	26	26	29	1.97
1587229--1587327	29	3.4	28	84	8	101	15	28	27	29	1.96
1587324--1587381	5	10.8	5	78	14	62	18	51	22	6	1.70
1587324--1587388	22	3.0	22	100	0	130	18	49	23	9	1.76
1587378--1587415	7	5.4	7	100	0	76	15	28	28	26	1.96
1608536--1608647	35	3.2	34	81	7	111	39	0	17	41	1.56
1621841--1622192	173	2.0	176	88	4	530	34	14	12	38	1.84
1622222--1622296	29	2.6	29	100	0	150	34	14	4	46	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638497--1638589	39	2.4	39	81	3	107	41	30	2	25	1.67
1642613--1642649	15	2.4	16	86	13	51	32	2	5	59	1.34
1643110--1643367	129	2.0	127	88	4	387	36	12	14	36	1.84
1643745--1643820	35	2.2	35	92	0	125	35	1	23	39	1.63
1644686--1671378	540	49.7	540	97	1	50773	30	10	19	38	1.87
1673789--1673830	15	2.7	15	85	14	59	59	7	0	33	1.25
1673886--1673917	3	10.7	3	100	0	64	65	0	0	34	0.93
1680868--1680905	20	1.9	20	88	0	58	26	34	26	13	1.93
1684618--1684662	20	2.2	21	81	18	60	42	0	2	55	1.12
1688443--1688491	18	2.7	18	100	0	98	53	14	6	26	1.64
1692182--1692257	35	2.2	35	90	0	116	40	22	1	35	1.62
1692640--1692881	126	1.9	125	90	3	387	35	14	13	35	1.86
1693333--1693366	16	2.0	18	88	11	54	64	5	2	26	1.30
1696211--1696375	48	3.4	48	88	7	219	23	23	8	45	1.79
1718033--1718121	31	2.9	31	77	9	83	43	7	3	44	1.49
1718195--1718315	60	2.0	60	85	0	161	31	18	16	33	1.93
1718516--1718649	60	2.2	60	92	2	216	30	17	20	31	1.96
1719625--1719709	43	2.0	43	95	0	152	17	1	27	54	1.51
1719625--1719694	24	3.1	23	66	26	60	18	1	25	54	1.52
1719742--1719787	25	1.9	25	82	8	60	32	4	4	58	1.37
1726870--1726895	6	4.3	6	100	0	52	69	15	15	0	1.20
1727878--1728006	60	2.2	59	85	4	179	32	24	5	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728195--1728337	60	2.4	60	80	8	146	39	4	21	34	1.73
1732253--1732337	36	2.4	36	95	0	152	25	29	20	24	1.99
1735938--1735996	29	2.0	29	100	0	118	49	13	13	23	1.78
1740619--1740677	29	2.0	29	100	0	118	49	13	13	23	1.78
1745303--1745361	29	2.0	29	100	0	118	49	13	13	23	1.78
1756148--1756202	20	2.8	20	78	10	58	50	0	1	47	1.11
1770059--1770176	62	1.9	62	85	0	164	25	22	11	41	1.86
1771999--1772057	27	2.2	27	90	0	91	37	3	5	54	1.39
1772237--1772299	26	2.4	27	73	10	67	49	0	1	49	1.10
1789343--1789393	21	2.4	22	74	9	61	37	15	0	47	1.46
1789847--1789875	2	14.5	2	100	0	58	48	0	0	51	1.00
1792957--1793216	135	1.9	135	88	1	396	30	25	17	26	1.97
1803192--1803230	15	2.5	16	87	4	53	51	2	2	43	1.29
1803176--1803293	60	2.0	60	88	3	175	55	1	5	38	1.32
1803262--1803311	22	2.4	20	78	12	55	64	0	2	34	1.05
1805461--1805505	23	2.0	23	90	0	72	24	26	26	22	2.00
1805473--1805783	149	2.1	145	91	5	502	34	21	17	26	1.96
1806683--1806717	18	1.9	18	88	11	54	22	17	5	54	1.64
1807295--1807338	21	2.2	20	87	4	61	15	25	27	31	1.96
1810587--1810631	23	2.0	23	90	0	72	24	26	26	22	2.00
1810599--1810915	149	2.1	151	92	3	525	34	20	17	27	1.95
1811821--1811855	18	1.9	18	88	11	54	22	17	5	54	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1812437--1812480	21	2.2	20	87	4	61	15	25	27	31	1.96
1818364--1818407	14	3.1	14	86	0	61	50	22	0	27	1.50
1818490--1818519	7	4.3	7	100	0	60	60	26	0	13	1.34
1820784--1820866	21	4.1	20	79	4	94	19	36	27	16	1.93
1822144--1822191	19	2.5	20	82	3	62	52	6	12	29	1.63
1824807--1824879	11	6.5	11	73	9	58	31	19	23	26	1.98
1824814--1824880	23	3.0	23	88	2	100	32	20	22	23	1.98
1826567--1826597	15	2.0	16	93	6	55	19	12	19	48	1.81
1827396--1827482	42	2.1	41	83	10	106	16	13	19	50	1.78
1828948--1828986	14	2.8	14	84	0	51	35	28	12	23	1.91
1829402--1829460	24	2.5	23	70	8	55	42	6	22	28	1.79
1836898--1836945	19	2.4	21	75	6	55	45	2	2	50	1.25
1841770--1841809	2	20.0	2	100	0	80	50	0	0	50	1.00
1848966--1849033	21	3.3	20	87	6	91	41	16	20	22	1.90
1849028--1849142	20	5.7	20	76	8	97	33	26	16	23	1.96
1849328--1849371	22	2.0	22	95	0	79	20	45	15	18	1.85
1849495--1849542	20	2.4	20	85	0	60	16	14	25	43	1.86
1849510--1849552	20	2.2	20	100	0	86	9	16	18	55	1.67
1849689--1849743	25	2.2	24	81	15	67	18	9	20	52	1.71
1850864--1850911	18	2.7	18	93	0	87	27	45	12	14	1.81
1851460--1851515	20	2.8	20	81	2	69	39	21	23	16	1.92
1851498--1851579	33	2.5	33	91	0	137	52	15	15	15	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1851598--1851654	14	3.7	14	75	20	60	10	15	22	50	1.74
1851591--1851670	33	2.4	33	95	0	142	11	17	21	50	1.77
1851612--1851670	19	3.4	19	71	22	65	13	16	20	49	1.80
1851664--1851709	20	2.3	20	88	0	65	15	21	26	36	1.93
1852063--1852130	21	3.3	20	74	8	66	25	39	16	19	1.91
1852053--1852142	40	2.2	42	86	4	130	22	40	15	22	1.91
1854003--1854133	19	7.7	19	67	23	103	43	19	23	13	1.86
1854003--1854129	33	3.8	33	92	4	220	43	18	23	14	1.87
1854004--1854136	66	2.0	66	97	0	248	42	18	23	15	1.89
1854139--1854251	33	3.4	33	90	0	172	10	22	20	46	1.80
1854357--1854393	14	2.6	14	91	0	65	45	24	0	29	1.53
1855745--1855844	21	4.8	21	67	7	60	23	20	36	21	1.96
1856067--1856247	94	2.0	90	90	7	285	47	18	12	20	1.81
1857913--1857998	19	4.8	19	75	17	87	46	18	23	11	1.82
1857913--1857998	38	2.5	35	88	11	124	46	18	23	11	1.82
1857999--1858065	19	3.5	18	82	11	80	10	16	25	47	1.78
1858597--1858707	41	2.7	40	81	2	132	19	20	17	42	1.89
1858579--1858707	20	6.3	20	81	4	134	20	20	18	40	1.92
1861074--1861204	65	2.0	65	97	2	246	34	16	9	40	1.80
1870570--1870622	21	2.5	21	78	6	63	20	24	18	35	1.95
1870612--1870679	21	3.3	20	87	6	91	41	16	20	22	1.90
1870670--1870806	41	3.4	41	75	11	138	36	24	15	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870673--1870786	20	5.7	20	75	8	79	34	26	15	23	1.95
1870715--1870780	20	3.3	20	82	4	80	30	28	12	28	1.93
1875388--1875439	2	26.0	2	100	0	104	50	0	0	50	1.00
1875840--1875929	22	4.1	22	94	0	153	23	18	26	31	1.98
1875840--1875929	44	2.0	44	97	0	171	23	18	26	31	1.98
1879496--1879651	65	2.4	64	90	3	233	30	17	21	30	1.96
1880251--1880307	27	2.1	27	83	0	69	57	14	3	24	1.52
1882274--1882369	45	2.2	44	85	9	124	27	16	22	33	1.96
1887979--1888035	21	2.7	21	91	0	96	29	17	28	24	1.97
1888097--1888243	65	2.3	64	81	8	156	32	16	21	29	1.95

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