genome.fa.s8283.2.7.7.80.10.50.1000.10.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: VEPZ01008283.1 Hibiscus syriacus cultivar Beakdansim tig00110945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2862730

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

This is table  10  of  14  ( 1608 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)
1872258--1872961	201	3.5	200	87	2	961	31	17	14	36	1.90
1874003--1874031	15	1.9	15	100	0	58	27	6	37	27	1.82
1874322--1875489	201	5.8	201	92	1	1876	30	18	14	36	1.91
1875938--1875986	19	2.6	19	93	0	80	55	8	2	34	1.41
1880064--1880615	182	3.1	181	87	2	792	27	15	13	43	1.85
1884258--1884294	3	12.3	3	100	0	74	32	0	0	67	0.91
1884582--1884625	23	1.9	23	86	9	63	54	6	0	38	1.27
1887082--1887141	30	2.0	30	93	0	102	26	11	25	36	1.90
1891868--1891912	22	2.0	22	100	0	90	13	8	8	68	1.38
1893673--1893709	16	2.1	18	85	14	51	62	5	0	32	1.18
1895709--1895737	3	9.7	3	100	0	58	68	0	31	0	0.89
1899296--1899326	3	10.3	3	100	0	62	67	0	0	32	0.91
1900384--1900417	2	17.0	2	100	0	68	50	0	0	50	1.00
1903351--1903805	81	5.6	81	92	0	696	34	20	10	34	1.87
1906142--1906179	19	2.0	20	89	5	60	60	0	0	39	0.97
1906895--1906952	29	2.0	30	89	3	91	46	18	20	13	1.83
1911045--1911149	37	2.9	37	85	5	126	41	22	15	20	1.89
1911390--1911491	42	2.5	41	81	1	114	24	22	21	31	1.98
1911188--1911825	214	3.0	214	89	1	956	32	15	20	32	1.93
1915054--1915100	17	2.8	17	96	0	85	42	0	0	57	0.98
1917967--1917993	13	2.1	13	100	0	54	22	25	14	37	1.93
1917996--1918038	22	2.0	22	100	0	86	23	13	27	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1923532--1923577	19	2.3	19	85	7	56	52	2	2	43	1.25
1923598--1923625	14	2.0	14	100	0	56	35	7	14	42	1.73
1923588--1923767	38	4.7	38	74	16	174	43	4	8	42	1.56
1923775--1923819	2	22.5	2	81	0	54	42	8	0	48	1.34
1925133--1925170	15	2.4	16	83	16	53	28	10	2	57	1.45
1932496--1932540	17	2.6	17	89	6	65	26	22	20	31	1.98
1933443--1933980	201	2.7	201	83	2	607	32	19	20	28	1.97
1934364--1934401	20	2.0	20	89	5	60	36	2	15	44	1.61
1934370--1934414	22	2.2	20	84	8	54	42	2	13	42	1.56
1934433--1934483	24	2.1	24	88	0	75	41	3	7	47	1.51
1934391--1934508	63	1.9	62	86	5	168	44	4	10	40	1.58
1940278--1940354	23	3.3	23	81	0	91	24	7	23	44	1.80
1943858--1943903	24	2.0	23	82	4	56	26	10	13	50	1.74
1943991--1944042	24	2.2	23	83	10	61	34	7	17	40	1.78
1949626--1949665	21	1.9	21	94	0	71	35	30	12	22	1.91
1949684--1949891	21	10.0	21	74	13	180	21	20	23	34	1.97
1949709--1949891	42	4.4	41	95	2	296	21	20	22	34	1.96
1950745--1951103	42	8.5	42	91	0	565	37	23	18	20	1.94
1950745--1951196	42	10.8	41	87	3	495	36	24	18	21	1.95
1951087--1951259	47	4.0	45	71	21	152	34	25	20	19	1.96
1951085--1951259	82	2.1	82	86	7	235	34	25	20	20	1.96
1952494--1952555	18	3.4	18	84	4	70	12	1	35	50	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1952779--1952821	2	21.5	2	100	0	86	51	0	0	48	1.00
1952865--1952901	15	2.5	15	90	0	65	70	0	13	16	1.17
1957250--1957288	15	2.8	14	85	11	53	41	0	17	41	1.50
1969185--1969276	45	2.0	47	85	4	125	30	11	20	36	1.89
1972132--1972205	13	5.3	13	77	15	76	17	44	20	17	1.87
1972127--1972199	31	2.4	31	90	0	110	17	46	20	15	1.84
1972146--1972184	18	2.2	18	95	0	69	17	48	20	12	1.80
1972146--1972199	18	3.3	17	73	24	53	18	46	20	14	1.84
1974703--1974785	24	3.5	24	79	11	89	16	12	18	53	1.73
1974715--1974783	12	5.8	12	75	13	61	15	10	18	55	1.68
1976840--1976895	23	2.4	23	87	0	85	17	50	19	12	1.78
1976849--1976901	13	4.3	13	72	13	58	16	45	20	16	1.86
1979433--1979502	12	5.8	12	79	12	72	14	14	18	52	1.74
1979396--1979504	24	4.5	24	80	3	121	18	14	17	49	1.80
1979396--1979504	48	2.3	48	88	0	155	18	14	17	49	1.80
1980536--1980563	13	2.2	13	100	0	56	32	7	21	39	1.80
1987362--1987443	9	8.3	9	74	20	67	73	0	14	12	1.11
1987381--1987520	17	7.8	17	67	27	60	75	0	14	10	1.04
1987362--1987520	10	15.9	10	68	26	65	74	0	15	10	1.06
1987357--1987520	26	6.7	25	69	20	80	74	0	15	9	1.07
1987431--1987515	13	6.7	12	74	20	59	77	0	15	7	0.97
1987430--1987515	6	13.5	6	82	15	68	77	0	15	6	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1987518--1987603	45	1.9	45	83	4	111	38	19	27	13	1.90
1988459--1988483	8	3.1	8	100	0	50	40	12	12	36	1.79
1988855--1989281	55	7.8	55	85	2	500	28	16	24	30	1.97
2001607--2001651	19	2.4	19	85	7	56	77	4	4	13	1.07
2002970--2003022	20	2.5	21	79	11	56	30	18	22	28	1.98
2008503--2008547	20	2.2	20	88	0	63	33	22	11	33	1.89
2008531--2008568	20	2.0	20	89	5	60	26	28	13	31	1.93
2009867--2009931	21	3.1	21	88	0	103	23	20	29	27	1.98
2012733--2012779	24	2.0	24	83	8	60	44	14	23	17	1.85
2023458--2023756	152	2.0	152	93	0	517	32	28	17	21	1.96
2030191--2030234	23	1.9	23	90	9	72	56	18	0	25	1.41
2030407--2030439	2	16.5	2	100	0	66	48	0	0	51	1.00
2030631--2030680	22	2.3	22	82	3	57	28	10	14	48	1.75
2032309--2032338	13	2.4	12	89	10	51	66	6	0	26	1.16
2033377--2033438	31	2.0	31	90	0	97	35	37	14	12	1.85
2033404--2034019	261	2.4	258	85	9	826	41	19	11	27	1.86
2039445--2039481	2	18.5	2	100	0	74	48	0	0	51	1.00
2052667--2052709	21	2.0	21	95	0	77	25	20	13	39	1.90
2061131--2061168	20	1.9	20	88	0	58	21	26	10	42	1.85
2063028--2063080	27	2.0	27	88	7	81	33	0	0	66	0.92
2063375--2063517	53	2.7	56	77	16	139	52	0	0	46	1.05
2063426--2063489	22	2.9	23	84	6	71	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2063481--2063515	18	1.9	18	88	0	52	60	0	0	40	0.97
2063479--2063531	25	2.2	25	86	6	74	54	0	1	43	1.11
2063479--2063529	23	2.3	23	83	9	63	56	0	1	41	1.10
2063465--2063624	54	2.9	55	80	10	150	49	0	1	48	1.12
2063461--2063654	27	7.6	25	70	17	80	48	0	1	49	1.14
2063673--2063717	23	2.0	23	86	0	63	53	2	2	42	1.25
2063812--2063862	20	2.5	21	75	18	61	52	0	0	47	1.00
2069164--2069202	21	1.9	21	84	5	53	46	2	5	46	1.38
2069256--2069284	2	14.5	2	100	0	58	51	0	0	48	1.00
2071029--2071106	41	1.9	41	83	0	102	39	16	14	29	1.88
2071126--2071345	114	1.9	113	83	2	280	29	24	20	25	1.99
2071429--2071531	21	4.9	21	85	0	125	14	44	15	25	1.84
2071415--2071532	42	2.9	42	82	5	143	15	44	15	24	1.84
2079918--2079952	18	1.9	18	94	0	61	28	34	20	17	1.95
2087748--2087811	33	1.9	33	100	0	128	25	6	29	39	1.80
2090100--2090142	12	3.7	12	87	3	61	53	9	37	0	1.33
2092381--2092428	19	2.5	19	82	3	60	52	6	12	29	1.63
2092515--2092584	34	2.1	32	81	5	77	32	14	28	24	1.94
2093149--2093208	2	31.5	2	83	9	63	53	1	0	45	1.10
2093274--2093324	8	6.1	8	80	17	50	41	1	7	49	1.43
2094734--2094781	24	2.0	24	91	0	78	35	14	18	31	1.91
2103991--2104040	24	2.1	24	100	0	100	28	16	14	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2120203--2120228	2	13.0	2	100	0	52	50	0	0	50	1.00
2120322--2120351	2	15.0	2	92	0	51	50	3	0	46	1.18
2126677--2126739	18	3.4	18	75	4	63	46	7	1	44	1.42
2127025--2127127	28	3.5	29	80	7	118	56	1	5	35	1.35
2127025--2127186	29	5.7	29	73	10	127	54	2	6	35	1.40
2128736--2128773	20	2.1	19	85	14	53	31	13	15	39	1.86
2130309--2130349	15	2.7	15	96	0	73	29	4	36	29	1.78
2137546--2137605	21	2.9	21	92	0	93	25	26	21	26	2.00
2143130--2143171	2	21.0	2	100	0	84	50	0	0	50	1.00
2146115--2146402	144	2.0	144	89	1	443	41	18	8	31	1.80

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