genome.fa.s7867.2.7.7.80.10.50.1000.10.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: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3477501

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  10  of  18  ( 2128 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)
1752236--1752510	37	7.9	35	73	15	153	42	5	1	49	1.37
1752214--1752460	103	2.4	102	76	12	254	45	6	1	46	1.38
1752281--1752416	66	2.0	69	84	8	181	41	5	2	50	1.39
1752236--1752438	35	5.9	35	73	20	153	43	6	1	47	1.39
1752201--1752466	33	7.8	34	69	20	128	44	6	1	47	1.38
1752268--1752569	103	2.9	102	77	13	269	42	5	1	49	1.38
1752494--1752549	29	1.9	29	92	0	94	46	8	1	42	1.45
1752236--1752566	173	1.9	172	79	10	372	43	6	1	48	1.39
1753202--1753233	3	10.7	3	100	0	64	31	0	0	68	0.90
1755086--1755131	22	2.1	22	91	0	74	56	0	2	41	1.11
1755092--1755143	22	2.4	22	96	0	95	51	0	5	42	1.25
1755621--1755672	20	2.5	21	81	3	61	40	19	23	17	1.91
1755661--1755774	20	5.7	20	81	6	122	31	24	18	25	1.97
1755658--1755774	61	1.9	61	87	0	171	33	23	17	24	1.97
1756368--1756532	19	9.1	19	74	15	134	12	21	20	45	1.83
1756373--1756532	33	4.4	36	81	11	152	11	21	20	46	1.82
1758567--1758633	21	3.2	21	68	6	55	23	34	20	20	1.97
1759989--1760024	14	2.6	14	95	0	63	30	0	25	44	1.54
1760131--1760187	19	3.3	18	72	23	59	43	21	22	12	1.85
1760236--1760294	19	3.4	19	73	22	74	13	22	18	45	1.84
1760184--1760294	33	3.4	33	80	5	143	15	22	18	43	1.88
1762588--1762612	12	2.1	12	100	0	50	0	28	0	72	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1762787--1762840	24	2.2	24	90	0	81	38	20	16	24	1.92
1764292--1764319	9	3.1	9	100	0	56	64	0	0	35	0.94
1765407--1765474	20	3.5	19	82	6	82	38	23	23	14	1.92
1765463--1765534	14	4.6	15	79	17	76	50	26	15	8	1.72
1765447--1765534	32	2.8	33	89	6	137	47	25	17	10	1.78
1765549--1765606	14	3.9	14	75	16	62	10	15	24	50	1.75
1765535--1765622	32	2.7	33	89	3	142	12	17	21	48	1.79
1765608--1765650	20	2.2	20	83	4	52	20	23	18	37	1.94
1765718--1765746	12	2.3	13	94	5	51	79	17	3	0	0.87
1766143--1766187	18	2.5	18	85	0	63	15	15	42	26	1.87
1767494--1767547	20	2.8	20	80	2	65	48	22	16	12	1.80
1767781--1767824	22	2.0	22	95	0	79	18	15	45	20	1.85
1768012--1768125	20	5.7	20	78	6	104	24	19	25	30	1.98
1767992--1768127	41	3.3	41	75	6	141	24	18	24	33	1.97
1774166--1774341	87	2.0	87	94	0	307	25	25	22	26	2.00
1779502--1779538	2	18.5	2	100	0	74	51	0	0	48	1.00
1779709--1781422	856	2.0	851	99	0	3356	35	11	21	31	1.89
1782806--1782960	64	2.4	64	77	7	163	30	18	21	29	1.97
1788296--1788397	50	2.0	50	100	0	204	38	15	7	38	1.77
1789399--1789438	20	2.0	21	85	5	55	25	17	10	47	1.78
1790230--1790602	30	12.4	30	96	0	683	32	23	19	24	1.98
1790855--1790955	4	25.2	4	83	0	85	37	25	11	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1790859--1790953	16	5.9	16	87	0	118	36	26	12	24	1.91
1790855--1790945	12	7.6	12	97	0	164	36	25	13	25	1.92
1795392--1795456	18	3.6	18	91	6	105	30	27	23	18	1.97
1800640--1800692	2	26.5	2	100	0	106	49	0	0	50	1.00
1804832--1805181	183	1.9	183	94	0	619	27	21	21	29	1.98
1806458--1806814	29	10.6	34	65	22	123	30	19	12	37	1.89
1806363--1806607	99	2.4	104	85	6	340	31	19	13	35	1.91
1806494--1806668	66	2.8	65	88	6	245	32	21	12	34	1.91
1806390--1806769	165	2.3	161	88	8	559	31	20	12	36	1.89
1806721--1806974	36	7.4	36	72	16	132	29	18	11	40	1.85
1806557--1806900	98	3.5	98	86	6	443	31	19	11	37	1.88
1806788--1806846	30	2.0	30	86	6	84	40	16	10	32	1.82
1806858--1806974	36	3.2	36	85	4	162	29	19	10	41	1.84
1807014--1807098	34	2.4	36	94	3	147	40	17	10	31	1.84
1807386--1807590	105	1.9	106	87	2	297	35	24	18	21	1.95
1807389--1807642	105	2.4	104	81	6	282	35	25	17	21	1.95
1810516--1810593	24	3.4	24	86	6	101	25	24	17	32	1.97
1812679--1813011	165	2.0	165	98	1	650	26	19	15	38	1.91
1816144--1816177	17	2.1	17	88	5	52	29	17	8	44	1.79
1816781--1816833	26	2.1	26	85	3	72	24	20	20	33	1.97
1816985--1817058	15	4.9	15	77	0	76	40	16	6	36	1.75
1819691--1819769	14	5.9	13	75	11	63	20	1	1	77	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1819733--1819792	3	20.0	3	86	6	86	33	0	0	66	0.92
1819699--1819792	9	10.9	9	79	12	72	25	0	1	73	0.90
1821224--1821292	23	3.0	23	79	8	79	26	7	1	65	1.27
1821195--1821293	23	4.5	22	74	18	73	25	7	3	64	1.33
1821534--1821562	13	2.2	13	100	0	58	44	6	13	34	1.71
1822530--1822567	15	2.5	15	86	0	58	50	13	21	15	1.78
1823541--1823574	13	2.4	15	90	9	54	14	17	8	58	1.61
1823541--1823574	7	4.9	7	86	13	52	14	17	8	58	1.61
1827488--1827676	75	2.5	75	92	0	308	28	16	20	34	1.94
1829014--1829124	22	5.0	22	95	0	204	32	18	13	36	1.89
1829496--1829961	122	4.0	112	78	12	379	38	15	20	26	1.92
1829648--1829961	122	2.6	122	91	1	495	40	14	19	25	1.90
1829771--1829834	20	3.2	20	64	27	55	42	9	21	26	1.83
1829518--1829961	244	1.9	234	83	8	581	38	15	20	25	1.91
1830322--1830400	3	26.0	3	80	12	90	31	0	0	68	0.90
1831820--1831882	2	32.0	2	93	3	110	52	0	0	47	1.00
1835783--1835816	17	2.1	17	88	5	52	29	17	8	44	1.79
1836402--1836490	23	3.8	24	78	8	76	29	24	23	22	1.99
1836621--1836672	15	3.5	15	89	0	77	32	21	7	38	1.82
1840333--1840376	21	2.1	21	83	8	54	45	22	4	27	1.72
1841003--1841028	13	2.0	13	100	0	52	61	7	0	30	1.24
1841004--1841090	34	2.6	34	92	0	147	60	12	3	22	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1841107--1841153	14	3.6	13	77	8	51	68	8	6	17	1.37
1843323--1843379	12	5.1	12	70	23	52	63	1	0	35	1.05
1843313--1843385	16	4.5	17	75	14	73	64	1	0	34	1.02
1843394--1843436	10	4.3	10	87	0	68	30	0	39	30	1.57
1843391--1843430	20	2.0	20	100	0	80	35	0	40	25	1.56
1843479--1843533	28	2.0	28	92	0	92	12	9	56	21	1.64
1853552--1853596	22	2.0	22	83	8	56	62	11	4	22	1.46
1854570--1854600	15	2.0	16	93	6	55	45	3	0	51	1.17
1856311--1856358	18	2.6	18	75	15	53	16	2	66	14	1.34
1856843--1856887	24	2.0	22	82	8	54	53	4	2	40	1.33
1859402--1859439	16	2.4	16	100	0	76	42	18	15	23	1.89
1862975--1863000	12	2.2	12	100	0	52	38	19	0	42	1.51
1876401--1876434	18	1.9	17	88	5	50	44	5	0	50	1.26
1877898--1878402	265	1.9	266	87	1	753	21	19	19	39	1.93
1884457--1884517	30	2.0	30	83	0	77	42	3	16	37	1.64
1886057--1886224	21	7.9	21	75	2	138	23	12	25	38	1.90
1893151--1893208	2	29.5	2	96	3	109	50	0	0	50	1.00
1894498--1894562	25	2.6	24	78	9	60	72	0	9	18	1.11
1894581--1894634	21	2.8	18	81	15	56	62	3	3	29	1.29
1894585--1894635	18	2.6	19	79	11	59	62	3	3	29	1.31
1894814--1894872	19	3.1	19	78	7	57	61	0	5	33	1.18
1894837--1894898	20	3.1	19	75	17	54	64	1	3	30	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1894837--1894939	22	4.8	21	73	17	86	61	0	5	32	1.26
1894885--1894933	23	2.1	24	81	11	57	57	0	8	34	1.29
1895407--1895503	37	2.6	37	86	0	140	31	12	15	40	1.84
1896251--1897310	106	10.1	106	91	1	1611	22	17	25	34	1.96
1898148--1898221	22	3.4	22	86	0	112	21	13	28	36	1.91
1898837--1898886	16	3.6	14	82	17	68	0	14	6	80	0.90
1902312--1902349	19	2.0	20	89	5	60	68	0	23	7	1.16
1903443--1903486	2	22.0	2	100	0	88	50	0	0	50	1.00
1903761--1903798	19	2.0	19	85	10	51	65	0	2	31	1.06
1904316--1904453	37	3.7	37	87	3	170	34	10	13	42	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18