genome.fa.s8225.2.7.7.80.10.50.1000.9.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: VEPZ01008225.1 Hibiscus syriacus cultivar Beakdansim tig00110858_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1890193

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

This is table  9  of  10  ( 1082 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)
1617328--1617354	14	1.9	14	100	0	54	29	29	18	22	1.97
1621055--1621253	53	3.7	54	87	4	271	23	25	18	32	1.97
1621069--1621286	53	4.1	53	89	2	267	23	26	17	33	1.96
1621329--1623516	108	20.3	107	88	5	2999	27	28	13	29	1.95
1621376--1623516	53	39.8	53	86	4	2812	27	28	14	29	1.95
1621329--1623516	323	6.8	321	90	3	3247	27	28	13	29	1.95
1626060--1626102	20	2.2	20	91	0	68	6	20	0	72	1.08
1628367--1628391	6	4.2	6	100	0	50	52	16	16	16	1.76
1629097--1629186	45	2.0	45	82	4	110	36	23	10	30	1.87
1633825--1633925	28	3.6	28	77	12	102	34	0	2	61	1.18
1634584--1634653	2	35.0	2	100	0	140	50	0	0	50	1.00
1641614--1641674	23	2.7	23	71	0	59	26	13	18	42	1.86
1641526--1641686	81	2.0	81	91	0	259	23	13	18	44	1.85
1651520--1652011	243	2.0	243	97	0	921	33	16	18	32	1.93
1654041--1654191	72	2.1	73	97	1	286	45	15	22	17	1.85
1658764--1658799	14	2.6	14	86	0	54	25	22	0	52	1.47
1658880--1659041	43	3.8	43	79	7	141	24	20	8	46	1.79
1660152--1660207	25	2.3	23	82	17	60	44	3	1	50	1.29
1660622--1660653	2	17.0	2	87	12	50	50	0	0	50	1.00
1664832--1664874	22	1.9	23	86	13	63	39	4	2	53	1.34
1670137--1670191	23	2.4	23	93	0	92	20	25	23	30	1.98
1673169--1673210	2	21.0	2	100	0	84	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)
1678266--1678316	22	2.3	22	93	0	84	27	19	37	15	1.92
1678806--1679164	172	2.1	173	89	1	560	40	5	17	37	1.72
1680906--1680930	6	4.2	6	100	0	50	16	0	64	20	1.30
1681419--1682212	37	20.5	37	85	12	1053	48	5	4	40	1.48
1681419--1682196	118	6.6	119	89	6	1157	48	6	4	40	1.49
1681445--1682212	155	4.9	155	89	6	1201	48	5	4	40	1.48
1685562--1685608	18	2.6	18	100	0	94	23	36	14	25	1.93
1691510--1691549	3	13.3	3	100	0	80	65	0	0	35	0.93
1691548--1691585	3	12.7	3	100	0	76	34	0	0	65	0.93
1691979--1692079	42	2.4	41	74	6	105	31	22	20	24	1.98
1691796--1693117	214	6.3	213	88	4	1909	32	19	15	32	1.93
1692383--1692484	42	2.5	41	80	4	116	29	18	24	27	1.98
1691904--1693117	409	2.9	408	90	3	1858	32	19	15	33	1.93
1693155--1693307	37	4.1	37	83	3	191	18	20	20	39	1.92
1693155--1693307	36	4.1	37	83	5	175	18	20	20	39	1.92
1693155--1693297	73	1.9	74	88	1	216	19	20	20	39	1.93
1701103--1701160	3	19.3	3	92	0	98	37	0	0	62	0.96
1701673--1701709	11	3.5	11	85	14	51	75	5	18	0	0.99
1701677--1701718	15	2.8	15	89	7	59	76	2	21	0	0.90
1701674--1701718	20	2.2	20	88	7	65	75	2	22	0	0.91
1703195--1703219	7	3.6	7	100	0	50	68	0	0	32	0.90
1713636--1713660	10	2.5	10	100	0	50	92	0	8	0	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1714779--1715070	83	3.4	82	86	10	376	28	13	23	34	1.93
1714974--1715277	114	2.7	115	95	1	558	31	13	22	32	1.93
1715996--1716830	112	7.5	112	94	1	1399	37	14	19	28	1.91
1717165--1717221	3	19.3	3	90	3	71	42	0	0	57	0.98
1717622--1717658	11	3.5	11	85	14	51	75	5	18	0	0.99
1717626--1717667	15	2.8	15	89	7	59	76	2	21	0	0.90
1717623--1717667	20	2.2	20	88	7	65	75	2	22	0	0.91
1720736--1720766	15	2.1	15	93	0	53	54	6	9	29	1.57
1721158--1721191	17	2.0	17	100	0	68	35	23	5	35	1.79
1723114--1723166	20	2.7	20	100	0	106	15	20	49	15	1.80
1725879--1725939	23	2.7	23	97	0	113	21	26	31	21	1.98
1733519--1733560	21	2.0	22	90	4	68	28	35	19	16	1.93
1746899--1747291	195	2.0	196	99	0	779	38	16	13	32	1.87
1747521--1747878	178	2.0	178	97	0	671	45	20	13	20	1.85
1753567--1753625	31	1.9	31	85	0	82	42	5	8	44	1.57
1753649--1753904	22	11.6	22	89	5	374	49	11	0	39	1.39
1753649--1753904	113	2.3	108	88	4	370	49	11	0	39	1.39
1754324--1754363	20	2.0	20	85	9	55	30	12	5	52	1.60
1754324--1754363	21	2.0	20	85	5	53	30	12	5	52	1.60
1759783--1759822	21	1.9	21	94	0	71	57	0	0	42	0.98
1761094--1761326	103	2.2	105	75	4	240	37	12	11	38	1.80
1763747--1763807	31	2.0	31	90	0	95	24	6	9	59	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1763762--1763820	31	1.9	31	89	0	91	27	8	10	54	1.63
1769479--1769529	23	2.3	23	90	10	79	31	21	33	13	1.92
1774851--1774903	27	2.0	27	96	0	97	58	15	1	24	1.47
1777213--1777398	93	2.0	93	98	0	363	40	15	13	30	1.86
1777458--1777509	27	2.0	27	88	3	79	32	19	13	34	1.90
1777559--1777771	36	5.9	36	90	4	340	18	24	20	36	1.95
1777559--1777776	72	3.0	72	98	0	418	17	24	20	37	1.94
1779211--1779396	93	2.0	93	98	0	363	40	15	13	30	1.85
1779456--1779507	27	2.0	27	88	3	79	32	19	13	34	1.90
1794310--1794370	32	1.9	32	83	6	79	47	3	9	39	1.53
1796052--1796106	19	2.8	20	94	2	94	16	23	38	21	1.93
1798309--1798349	13	3.1	13	92	3	64	41	7	14	36	1.74
1799728--1799772	23	2.0	23	86	0	63	26	26	26	20	1.99
1799863--1799913	25	2.0	25	88	3	75	33	23	23	19	1.97
1800939--1800980	19	2.2	19	79	12	50	59	0	35	4	1.19
1806530--1806574	23	2.0	23	86	0	63	26	26	26	20	1.99
1806689--1806757	25	2.8	25	97	0	129	28	26	27	17	1.97
1807200--1807242	21	2.0	21	86	0	59	13	30	32	23	1.93
1807766--1807807	19	2.2	19	79	12	50	59	0	35	4	1.19
1813530--1813586	20	2.8	20	89	0	87	17	22	35	24	1.95
1816498--1816572	35	2.1	35	82	4	89	34	0	20	45	1.51
1818737--1818771	12	2.9	12	100	0	70	42	25	14	17	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1827073--1827329	132	1.9	132	87	1	372	42	11	12	32	1.79
1830307--1830342	12	3.0	12	100	0	72	41	8	8	41	1.65
1830576--1830614	19	2.1	19	95	0	69	20	38	15	25	1.92
1830513--1830721	65	3.2	63	82	9	201	30	26	16	26	1.97
1830562--1830722	65	2.5	65	85	3	209	30	27	16	26	1.96
1832798--1832837	20	2.0	21	85	5	55	40	12	5	42	1.64
1837772--1837810	19	2.1	19	90	0	60	23	38	12	25	1.90
1837758--1837918	65	2.5	63	80	7	173	32	26	14	26	1.95
1846691--1846725	18	1.9	18	88	11	54	5	20	37	37	1.76
1847654--1847736	41	2.0	41	95	0	148	20	13	20	45	1.84
1848049--1848092	14	3.4	14	70	23	51	56	18	11	13	1.66
1854731--1854792	21	2.9	21	83	11	72	22	33	25	17	1.96
1858384--1858426	2	21.5	2	100	0	86	48	0	0	51	1.00
1868295--1868365	28	2.6	28	84	6	92	42	35	0	22	1.54
1869671--1869916	41	6.0	41	98	0	456	14	23	23	37	1.92
1870009--1870066	6	9.7	6	96	0	107	31	50	17	1	1.56
1870067--1870097	5	6.4	5	96	3	55	35	22	41	0	1.54
1870573--1870618	6	7.7	6	100	0	92	0	17	50	32	1.47
1870720--1870787	22	3.2	22	71	12	79	38	25	19	17	1.93
1870694--1870787	41	2.3	41	94	0	161	41	23	15	19	1.90
1870694--1870807	41	2.8	41	90	4	158	42	22	17	17	1.89
1870779--1870871	20	4.6	20	82	2	123	40	23	21	13	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870738--1870868	61	2.2	59	82	10	165	40	22	20	16	1.91
1870819--1870892	21	3.6	21	74	3	87	35	27	17	20	1.95
1870799--1870896	41	2.4	41	98	0	187	37	24	19	18	1.94
1870929--1871034	20	5.2	20	64	12	54	35	25	19	18	1.95
1870928--1871038	41	2.7	40	88	4	168	36	24	19	19	1.95
1870936--1871042	21	5.2	21	67	4	83	38	26	18	16	1.92
1870799--1871055	142	1.8	142	93	0	442	35	23	20	20	1.96
1871358--1871391	2	17.0	2	100	0	68	50	0	0	50	1.00
1880462--1880524	24	2.7	24	92	4	103	46	7	11	34	1.69
1881159--1881193	18	1.9	18	94	0	61	40	0	25	34	1.56

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