genome.fa.s8314.2.7.7.80.10.50.1000.8.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: VEPZ01008314.1 Hibiscus syriacus cultivar Beakdansim tig00111008_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2414839

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

This is table  8  of  10  ( 1196 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)
1653092--1653133	18	2.4	17	92	4	66	33	28	9	28	1.88
1657050--1657251	36	5.5	36	84	10	184	46	4	3	44	1.43
1657050--1657251	72	2.8	73	79	12	225	46	4	3	44	1.43
1657242--1657343	32	3.2	31	80	9	107	44	1	3	50	1.32
1657394--1657419	13	2.0	13	100	0	52	15	0	7	76	0.99
1658894--1658956	28	2.3	27	81	10	65	15	3	6	74	1.15
1660711--1660756	19	2.5	19	92	3	76	10	8	8	71	1.30
1664149--1664910	84	9.2	83	81	5	790	29	25	20	23	1.99
1664149--1664863	330	2.2	333	90	1	1175	29	25	20	23	1.99
1664149--1664910	249	3.1	247	84	4	933	29	25	20	23	1.99
1665534--1665768	75	3.1	74	78	13	246	47	4	3	44	1.40
1665534--1665850	36	8.7	36	77	17	241	46	4	4	44	1.43
1665729--1665830	32	3.2	31	83	9	125	45	2	4	47	1.39
1665881--1665906	13	2.0	13	100	0	52	15	0	7	76	0.99
1667162--1667197	15	2.5	15	90	4	56	13	8	0	77	0.98
1667211--1667277	13	4.7	13	73	23	55	17	4	1	76	1.04
1668007--1668042	14	2.6	14	95	0	63	25	8	30	36	1.85
1672812--1672877	19	3.6	18	73	6	60	30	4	1	63	1.23
1672835--1672877	19	2.3	19	88	4	61	25	4	2	67	1.22
1678817--1678858	2	21.0	2	100	0	84	50	0	0	50	1.00
1693788--1693826	19	2.1	19	95	0	69	20	38	15	25	1.92
1693725--1693934	65	3.3	63	83	8	226	30	25	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693725--1693954	64	3.6	64	82	6	234	29	26	17	27	1.97
1701325--1701368	21	2.1	21	86	0	61	9	36	15	38	1.80
1702409--1702447	19	2.1	19	95	0	69	20	38	15	25	1.92
1702346--1702555	65	3.3	63	83	8	226	30	25	16	27	1.97
1702346--1702575	64	3.6	64	82	6	234	29	26	17	27	1.97
1709042--1709365	108	3.0	106	80	10	298	43	4	7	44	1.51
1709096--1709373	146	1.9	148	91	4	456	43	4	6	44	1.51
1709370--1709447	34	2.2	36	88	6	115	46	0	3	50	1.20
1710698--1710780	27	3.1	26	81	13	98	27	2	1	68	1.09
1710967--1710997	6	5.2	6	92	0	53	35	0	0	64	0.94
1712671--1712716	19	2.4	19	100	0	92	10	10	10	67	1.43
1716076--1717014	84	11.4	82	79	7	929	29	24	21	24	1.99
1716076--1717018	165	5.7	165	89	1	1243	29	24	20	24	1.99
1716076--1716989	249	3.7	249	81	4	1128	29	24	20	25	1.99
1717596--1717701	40	2.5	44	75	14	116	47	2	5	44	1.41
1717613--1717914	146	2.1	145	90	5	475	45	4	5	44	1.48
1717878--1717943	29	2.3	29	83	0	78	46	3	4	45	1.38
1717839--1717975	64	2.2	63	81	7	161	48	2	3	45	1.32
1717907--1717999	34	2.6	35	86	10	125	47	0	5	47	1.25
1718024--1718075	17	2.9	18	80	11	63	17	3	0	78	0.89
1718012--1718072	24	2.5	23	84	10	68	18	4	0	77	0.95
1718022--1718066	13	3.6	13	82	11	58	17	2	0	80	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1719244--1719329	29	3.0	28	71	17	70	30	1	1	67	1.05
1724584--1724635	21	2.5	20	73	11	52	51	1	1	44	1.23
1727004--1727056	28	2.0	27	85	7	72	35	1	9	52	1.45
1731327--1731394	2	34.0	2	100	0	136	50	0	0	50	1.00
1740382--1740408	1	27.0	1	100	0	54	0	0	100	0	0.00
1741710--1741743	2	17.0	2	100	0	68	50	0	0	50	1.00
1751163--1751213	25	2.0	25	100	0	102	33	31	15	19	1.93
1752456--1752959	161	3.1	161	98	0	972	36	20	10	32	1.88
1753616--1753648	6	5.5	6	100	0	66	15	48	0	36	1.45
1761594--1761632	19	2.2	18	90	9	62	41	0	5	53	1.23
1763908--1763942	10	3.5	10	88	0	52	51	25	11	11	1.71
1763885--1763942	24	2.6	22	78	10	57	53	22	12	12	1.70
1763895--1763957	14	4.1	14	72	21	54	52	25	12	9	1.69
1763885--1763932	24	2.0	24	91	0	78	54	20	12	12	1.70
1768350--1768463	50	2.3	50	92	0	192	33	21	8	35	1.85
1779658--1779692	17	2.1	17	94	0	61	60	0	0	40	0.97
1783895--1783968	37	2.0	37	91	0	121	32	31	4	32	1.77
1792327--1792379	21	2.6	21	83	16	67	35	1	3	58	1.27
1792661--1792700	14	2.9	14	92	3	64	20	0	27	52	1.46
1792739--1793264	282	1.9	282	91	0	874	30	7	23	37	1.84
1793240--1793268	7	4.1	7	100	0	58	13	0	41	44	1.44
1793352--1793381	7	4.3	7	95	0	51	46	36	0	16	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1793648--1793720	34	2.2	34	80	9	89	63	2	1	32	1.17
1794544--1794582	19	2.2	17	86	9	51	28	5	0	66	1.12
1795614--1795645	15	2.1	15	94	0	55	6	37	0	56	1.25
1795634--1795696	28	2.3	26	82	15	81	12	30	4	52	1.60
1797623--1797661	17	2.3	17	86	8	53	56	2	0	41	1.13
1800923--1800973	3	17.0	3	100	0	102	66	0	0	33	0.92
1801571--1801636	12	5.6	13	76	18	65	54	0	1	43	1.09
1802093--1802136	16	2.5	17	79	13	54	45	2	0	52	1.13
1807732--1808497	393	1.9	393	98	0	1498	26	25	15	32	1.95
1811986--1812019	17	2.0	17	100	0	68	17	29	17	35	1.93
1830394--1830423	14	2.1	14	93	0	51	76	0	0	23	0.78
1831850--1831926	36	2.1	37	85	9	104	49	1	3	45	1.28
1832072--1832109	20	1.9	20	88	0	58	26	21	5	47	1.71
1832707--1832780	28	2.6	28	78	4	76	35	0	6	58	1.25
1833368--1833426	2	30.0	2	96	3	111	49	0	0	50	1.00
1834550--1834602	22	2.4	22	93	0	88	41	13	20	24	1.88
1835255--1835388	32	4.3	31	91	5	202	35	21	18	24	1.96
1835255--1835389	62	2.2	60	88	7	207	34	22	18	24	1.96
1836778--1836813	3	11.7	3	94	5	63	63	0	33	2	1.08
1837264--1837290	2	13.5	2	100	0	54	48	0	0	51	1.00
1838946--1838982	2	18.5	2	100	0	74	48	0	0	51	1.00
1839912--1839955	23	1.9	23	85	0	61	38	2	0	59	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1843101--1843131	14	2.2	14	94	0	53	35	16	6	41	1.74
1844134--1844172	17	2.4	17	95	4	71	43	0	5	51	1.24
1844447--1844562	54	2.1	54	98	0	223	39	9	7	43	1.66
1844459--1844544	27	3.2	27	61	12	68	41	9	5	43	1.61
1844751--1844790	15	2.7	15	88	0	62	12	27	10	50	1.72
1844837--1844896	31	1.9	31	89	0	93	48	16	13	21	1.80
1846725--1846810	45	1.9	44	85	2	118	37	3	8	51	1.49
1846877--1846989	60	1.9	60	89	7	176	29	15	17	37	1.91
1849695--1849728	13	2.5	14	90	4	52	47	29	0	23	1.52
1850730--1850795	28	2.4	28	92	2	116	16	9	30	43	1.79
1860492--1860579	39	2.2	40	88	4	126	35	22	20	21	1.96
1860513--1860599	39	2.2	39	87	4	122	29	20	25	24	1.99
1868989--1869079	18	4.9	18	81	5	110	29	29	19	20	1.97
1869176--1869237	21	2.9	22	79	13	60	33	20	3	41	1.69
1869183--1869237	21	2.7	20	82	5	65	36	20	3	40	1.70
1869602--1869664	24	2.8	22	76	9	58	23	25	20	30	1.99
1869643--1869764	63	1.9	63	86	3	174	22	18	22	36	1.95
1876151--1876259	27	4.0	27	97	0	200	33	12	11	43	1.78
1877007--1877132	63	2.0	63	92	0	207	30	11	11	47	1.74
1883020--1883071	21	2.5	21	81	3	61	38	19	25	17	1.93
1883057--1883134	41	1.9	41	86	0	111	39	21	16	21	1.92
1883060--1883154	20	4.7	20	80	2	91	34	24	17	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1883344--1883387	22	2.0	22	90	0	70	20	43	15	20	1.88
1883651--1883688	20	1.9	20	88	0	58	13	15	21	50	1.78
1885007--1885051	18	2.5	18	88	0	72	26	44	15	13	1.83
1885524--1885569	20	2.3	20	85	7	58	36	26	19	17	1.94
1885563--1885604	19	2.2	19	100	0	84	45	16	21	16	1.86
1885645--1885760	20	6.3	19	76	11	91	13	19	24	42	1.88
1887742--1887809	19	3.8	19	85	14	101	47	17	22	13	1.82
1887828--1887885	20	2.9	20	94	0	98	17	22	22	37	1.93
1888945--1888998	24	2.2	24	86	0	72	25	16	18	38	1.92
1889173--1889197	12	2.1	12	100	0	50	72	0	28	0	0.86

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