genome.fa.s8982.2.7.7.80.10.50.1000.10.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: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2253222

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

This is table  10  of  12  ( 1401 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)
1717488--1717553	31	2.1	31	91	0	105	12	13	25	48	1.77
1717538--1717589	23	2.3	23	86	0	68	17	9	13	59	1.60
1717684--1717732	21	2.4	21	82	3	55	55	0	4	40	1.19
1719512--1719918	86	4.9	86	91	5	667	21	31	14	31	1.94
1719512--1719918	166	2.4	168	91	4	659	21	31	14	31	1.94
1719750--1719918	80	2.2	76	91	6	270	20	31	16	30	1.95
1725384--1725410	14	1.9	14	100	0	54	0	22	7	70	1.12
1725885--1725992	3	36.7	3	90	1	166	63	0	1	34	1.05
1726283--1726810	113	4.7	113	94	0	878	28	20	12	37	1.89
1727423--1728735	84	15.6	84	98	0	2547	34	22	15	27	1.94
1729669--1729717	16	3.0	16	85	8	55	0	20	0	79	0.73
1729674--1729771	12	7.8	13	68	16	64	6	15	0	78	0.93
1729702--1729760	26	2.3	26	100	0	118	10	13	0	76	1.02
1729701--1729776	26	2.9	25	84	9	98	9	14	0	76	1.02
1740345--1740387	18	2.5	17	85	11	52	67	4	0	27	1.10
1742040--1742088	21	2.5	19	81	12	62	0	22	10	67	1.20
1742065--1742090	13	2.0	13	100	0	52	0	23	7	69	1.14
1742046--1742094	21	2.3	21	82	0	62	0	22	10	67	1.20
1742565--1742668	3	34.7	3	88	0	154	64	0	1	33	1.05
1744304--1744360	27	2.1	27	90	0	87	31	5	50	12	1.62
1745169--1745195	3	9.0	3	100	0	54	66	0	0	33	0.92
1749444--1749468	12	2.1	12	100	0	50	28	16	56	0	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749531--1749583	20	2.7	20	100	0	106	62	0	3	33	1.13
1755542--1755582	8	5.2	8	82	5	57	34	0	29	36	1.58
1755795--1755830	14	2.6	14	95	0	63	0	38	50	11	1.38
1755809--1756295	128	3.8	128	97	0	893	22	25	19	32	1.98
1756695--1756794	33	3.0	34	83	2	139	39	3	4	54	1.35
1757314--1757407	21	4.5	21	92	5	129	20	26	35	18	1.95
1757411--1757458	21	2.3	21	85	0	60	22	12	39	25	1.89
1759172--1759258	17	5.4	16	70	21	56	58	2	0	39	1.11
1760763--1760806	15	2.9	15	86	0	61	11	15	61	11	1.57
1763478--1763531	19	3.0	18	74	20	51	40	0	1	57	1.09
1763470--1763542	35	2.1	34	82	12	87	41	0	2	56	1.14
1763743--1763777	2	17.5	2	100	0	70	48	0	0	51	1.00
1764962--1765000	2	19.5	2	100	0	78	51	0	0	48	1.00
1774066--1774119	2	27.0	2	100	0	108	50	0	0	50	1.00
1789233--1789287	15	3.3	15	73	22	56	43	1	0	54	1.10
1789206--1789251	23	2.0	23	91	0	74	45	0	2	52	1.13
1789324--1789379	19	2.6	22	75	18	64	58	1	0	39	1.08
1789331--1789367	19	1.9	19	94	0	65	64	0	0	35	0.94
1796761--1796804	21	2.1	21	83	4	54	59	4	9	27	1.48
1800553--1800613	2	30.5	2	96	0	113	49	1	0	49	1.10
1801240--1801581	137	2.5	138	94	2	625	39	13	19	27	1.89
1801863--1802202	168	2.0	171	91	5	557	27	17	9	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1802188--1802238	10	5.2	10	75	11	52	29	1	1	66	1.13
1813699--1814562	105	8.2	105	92	1	1387	32	26	18	21	1.97
1814935--1814999	2	32.5	2	100	0	130	49	0	0	50	1.00
1815544--1815966	137	3.0	138	93	5	715	37	14	19	28	1.91
1816249--1816597	174	2.0	174	96	0	644	27	16	9	46	1.77
1817712--1818557	309	2.7	306	83	8	1034	35	12	16	36	1.86
1821457--1821502	21	2.3	21	88	7	69	45	8	19	26	1.79
1822164--1822326	31	5.3	31	90	0	209	40	19	17	22	1.91
1822164--1822326	62	2.6	62	93	0	272	40	19	17	22	1.91
1825738--1825791	22	2.5	22	78	3	65	33	20	16	29	1.95
1828637--1828844	69	3.0	67	80	10	233	46	15	1	36	1.55
1828878--1828915	2	19.0	2	100	0	76	50	0	0	50	1.00
1836233--1836277	24	1.9	24	86	4	65	48	13	24	13	1.78
1836781--1836805	13	1.9	13	100	0	50	56	0	28	16	1.41
1839233--1839418	31	6.0	31	86	6	261	25	17	20	37	1.94
1840192--1840240	19	2.6	19	90	0	71	32	12	8	46	1.71
1842001--1842029	14	2.0	15	93	6	51	34	10	0	55	1.34
1855973--1856735	323	2.4	322	93	1	1305	21	14	20	43	1.87
1859452--1859508	19	2.9	20	76	23	59	56	0	0	43	0.99
1859481--1859520	22	1.9	21	90	10	64	45	2	2	50	1.28
1860880--1860955	20	3.7	20	70	19	57	25	19	28	26	1.99
1861511--1861593	22	3.8	22	95	0	139	28	19	25	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1862134--1862184	22	2.3	23	80	16	63	31	19	25	23	1.98
1863305--1863395	38	2.4	38	92	0	155	37	14	15	32	1.87
1865483--1865548	28	2.4	28	97	0	123	16	16	27	39	1.90
1867012--1867054	17	2.5	17	85	7	52	55	6	18	18	1.64
1867022--1867055	17	2.0	17	94	0	59	55	5	14	23	1.61
1868631--1868655	2	12.5	2	100	0	50	48	0	0	52	1.00
1874142--1874264	31	4.0	31	95	2	212	38	22	19	19	1.94
1878486--1878639	31	5.0	31	96	1	274	38	22	19	19	1.94
1886283--1886434	31	5.0	31	90	4	238	37	20	20	21	1.94
1886283--1886434	60	2.5	62	90	5	238	37	20	20	21	1.94
1887294--1887338	21	2.1	21	87	0	63	15	24	28	31	1.96
1890286--1890439	31	5.0	31	93	1	256	37	20	20	22	1.95
1891306--1891350	21	2.1	21	87	0	63	15	24	28	31	1.96
1892275--1892322	21	2.3	20	78	3	51	41	6	22	29	1.78
1894776--1894829	20	2.6	21	82	8	58	25	20	24	29	1.99
1894851--1894925	21	3.6	21	89	1	107	21	17	26	34	1.95
1896584--1896640	24	2.4	24	82	5	62	50	0	1	47	1.11
1898027--1898061	17	2.1	16	94	5	61	48	11	11	28	1.74
1898086--1898132	19	2.3	21	85	10	71	27	19	12	40	1.88
1898088--1898131	20	2.2	20	92	4	72	27	20	13	38	1.90
1903367--1903492	29	4.4	28	70	12	96	34	7	0	57	1.32
1903527--1903596	30	2.3	30	82	4	79	42	8	1	47	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1903653--1903764	30	3.7	29	82	8	118	50	0	6	42	1.27
1912421--1913919	55	27.5	55	84	3	1224	27	23	17	31	1.96
1912421--1913479	163	6.5	163	86	2	1250	26	22	18	32	1.97
1913440--1914083	55	11.7	55	91	0	1022	29	24	14	30	1.95
1915126--1915194	13	4.9	13	72	20	59	4	15	0	79	0.88
1915126--1915206	9	9.0	8	71	20	54	4	16	0	79	0.91
1915112--1915206	48	2.0	47	84	12	122	5	17	1	75	1.04
1915128--1915188	10	5.7	10	79	12	59	3	16	0	80	0.84
1915129--1915205	10	7.7	10	76	15	54	5	15	0	79	0.91
1915122--1915208	8	9.6	9	74	20	58	6	16	0	77	0.98
1915134--1915208	15	4.9	16	71	12	61	6	16	0	77	0.97
1936619--1936698	39	2.1	39	95	0	142	41	7	10	41	1.67
1936721--1936747	2	13.5	2	100	0	54	51	0	0	48	1.00
1937660--1937704	20	2.2	20	80	0	54	26	33	17	22	1.96
1939323--1939380	21	2.8	21	97	0	107	31	20	20	27	1.98
1939840--1939871	10	3.2	10	100	0	64	59	0	40	0	0.97
1939833--1939874	13	3.3	13	81	15	52	57	0	42	0	0.99
1949606--1949657	25	2.1	25	85	0	68	30	11	23	34	1.90
1949936--1950036	30	3.4	30	92	0	166	28	8	23	38	1.85
1952650--1952689	13	3.2	13	82	13	57	47	2	5	45	1.38
1952645--1952684	11	3.5	11	83	12	53	47	2	2	47	1.29
1952645--1952930	24	11.5	24	70	14	109	45	8	3	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1952771--1952802	16	2.0	16	100	0	64	43	18	0	37	1.51
1952790--1952930	26	5.6	24	74	9	95	46	7	3	43	1.48
1960774--1960983	65	3.2	64	80	8	212	29	25	16	28	1.97
1960823--1961000	64	2.8	64	82	5	200	28	26	16	28	1.97
1966750--1966805	22	2.7	21	83	10	62	30	23	17	28	1.97
1968335--1968378	21	2.1	21	86	0	61	9	36	15	38	1.80
1968957--1969036	31	2.6	31	83	0	106	28	3	36	31	1.75
1969365--1969574	65	3.2	64	80	7	219	30	25	16	27	1.97
1976452--1976612	61	2.7	60	79	11	150	39	6	8	45	1.60
1979033--1979172	42	3.4	42	73	9	124	27	15	22	35	1.94

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