genome.fa.s7859.2.7.7.80.10.50.1000.9.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: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3538007

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

This is table  9  of  18  ( 2075 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)
1860054--1860095	22	2.0	21	90	4	66	54	11	7	26	1.62
1863713--1863772	31	2.0	30	87	12	88	36	3	0	60	1.14
1864217--1864245	15	1.9	15	100	0	58	48	27	6	17	1.72
1864372--1864757	183	2.1	183	90	3	600	43	3	8	45	1.50
1864763--1864796	9	3.7	9	92	4	50	29	8	11	50	1.69
1868615--1868639	3	8.3	3	100	0	50	64	0	36	0	0.94
1870634--1870677	2	22.0	2	100	0	88	50	0	0	50	1.00
1870925--1870959	6	5.7	6	96	3	61	68	0	0	31	0.90
1873039--1873082	22	2.1	21	87	8	63	25	0	0	75	0.81
1873110--1873144	18	1.9	18	88	0	52	25	31	25	17	1.97
1873272--1873312	20	2.0	21	85	4	57	73	0	0	26	0.84
1873341--1873396	2	28.5	2	80	3	51	46	1	5	46	1.36
1874101--1874226	11	10.2	12	76	17	100	77	2	3	15	1.02
1874101--1874226	6	20.5	6	73	18	100	77	2	3	15	1.02
1874101--1874222	17	7.0	17	77	14	106	77	2	4	15	1.02
1874363--1874395	2	16.5	2	100	0	66	51	0	0	48	1.00
1874472--1874651	11	15.7	11	69	23	72	74	2	2	20	1.05
1874448--1874548	26	4.0	23	75	17	71	77	1	2	17	0.99
1874445--1874663	19	10.8	18	73	16	116	74	1	3	19	1.05
1874445--1874664	7	30.3	7	65	21	73	75	1	3	19	1.05
1874449--1874551	45	2.3	46	81	8	131	75	1	4	17	1.07
1874461--1874647	94	1.9	99	81	11	228	74	2	2	20	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1874598--1874672	20	3.7	19	84	12	89	81	0	4	14	0.83
1875755--1875799	16	2.9	16	80	3	56	57	0	0	42	0.98
1876594--1876754	85	1.9	85	84	0	214	28	17	20	33	1.95
1877023--1877284	125	2.1	124	89	0	389	25	14	24	35	1.93
1878844--1878923	14	5.5	15	82	8	78	40	2	1	56	1.21
1878867--1878923	2	29.0	2	84	10	73	43	3	1	50	1.29
1878955--1879017	18	3.5	18	69	16	58	26	6	1	65	1.26
1879275--1879306	12	2.8	12	95	4	57	21	0	0	78	0.76
1879262--1879303	21	2.0	22	86	13	61	19	2	2	76	1.01
1881816--1881858	14	3.1	14	80	12	61	81	0	16	2	0.79
1881817--1881869	13	4.0	13	81	16	56	77	1	16	3	1.01
1883403--1883483	37	2.2	38	82	6	94	32	19	12	35	1.89
1883490--1883575	37	2.4	37	90	2	129	24	22	13	39	1.90
1883490--1883809	36	9.2	36	73	13	150	27	19	13	40	1.88
1883409--1883779	102	3.6	101	86	2	449	29	19	12	38	1.89
1883592--1883817	36	6.4	36	77	10	200	27	19	12	40	1.88
1883409--1883779	203	1.8	204	81	2	469	29	19	12	38	1.89
1884599--1884802	110	1.9	110	87	0	300	35	23	19	22	1.96
1886303--1886399	37	2.9	34	80	9	101	27	4	2	65	1.21
1886371--1886432	17	3.6	18	78	8	58	22	3	0	74	0.96
1901084--1901266	11	15.7	11	68	18	77	74	3	7	15	1.17
1901077--1901142	10	6.1	10	77	19	53	75	4	3	16	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901187--1901225	6	6.7	6	85	14	55	82	0	2	15	0.79
1901400--1901462	2	31.5	2	100	0	126	50	0	0	49	1.00
1901478--1901609	3	45.7	3	72	18	61	68	1	4	25	1.18
1901516--1901649	5	25.8	5	70	17	60	72	1	3	22	1.09
1901446--1901635	92	2.0	94	82	10	230	66	1	6	25	1.21
1901564--1901730	28	5.9	28	70	20	91	74	3	2	19	1.10
1901508--1901730	20	11.2	19	68	25	92	72	2	3	21	1.13
1901574--1901730	11	14.1	11	69	18	62	73	3	3	19	1.10
1901490--1901688	95	2.1	94	80	11	212	70	2	3	24	1.11
1901675--1901725	7	6.9	7	75	20	50	78	3	3	13	1.03
1903053--1903185	59	2.3	59	89	2	196	36	12	6	45	1.67
1903437--1903470	17	2.0	17	88	11	52	64	0	2	32	1.08
1924587--1924647	23	2.9	21	85	7	70	19	21	32	26	1.97
1928458--1928497	21	1.9	21	89	0	62	30	7	7	55	1.56
1936282--1936338	23	2.5	23	83	11	73	38	3	1	56	1.27
1945841--1945875	15	2.3	15	100	0	70	20	5	22	51	1.68
1952414--1952474	24	2.5	24	97	0	113	22	22	21	32	1.98
1961223--1961265	2	21.5	2	100	0	86	51	0	0	48	1.00
1961737--1961795	21	2.8	21	80	10	66	71	3	1	23	1.11
1961737--1961804	32	2.1	33	86	8	95	69	2	2	25	1.17
1961737--1961795	10	5.7	10	78	7	64	71	3	1	23	1.11
1963060--1963117	21	2.8	20	84	7	71	22	5	3	68	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1963060--1963117	10	5.6	10	84	8	71	22	5	3	68	1.24
1963612--1963661	23	2.1	25	92	7	86	42	4	2	52	1.31
1963676--1963713	11	3.5	11	85	7	51	52	0	0	47	1.00
1963679--1963717	18	2.1	19	95	4	71	48	0	0	51	1.00
1965773--1965824	3	18.0	3	84	7	63	36	0	0	63	0.95
1966821--1966858	19	2.0	20	89	5	60	63	0	13	23	1.30
1974566--1974638	38	1.9	38	88	0	110	27	19	17	35	1.94
1974624--1974728	45	2.3	45	81	0	120	30	15	17	37	1.90
1974666--1974871	45	4.6	44	77	4	164	25	16	17	40	1.90
1974679--1974845	90	1.9	89	84	3	228	24	17	13	44	1.85
1975727--1975789	21	3.0	21	100	0	126	57	9	0	33	1.31
1976195--1976258	22	2.9	22	90	0	101	26	20	23	29	1.99
1985924--1985960	18	2.1	18	94	0	65	56	2	0	40	1.13
1988085--1988611	134	3.9	134	82	4	589	30	19	18	31	1.96
1988085--1988611	268	2.0	270	83	5	674	30	19	18	31	1.96
1988811--1988858	15	3.1	15	84	6	51	29	4	0	66	1.10
1989234--1989284	26	2.0	26	88	0	75	37	9	23	29	1.87
1995999--1996027	3	9.7	3	100	0	58	65	0	0	34	0.93
2008687--2008749	31	2.0	32	90	3	101	23	6	33	36	1.80
2010344--2010425	26	3.2	26	94	1	139	21	14	29	34	1.93
2019874--2019929	21	2.7	21	97	0	103	17	19	30	32	1.95
2021761--2021883	64	1.9	65	88	8	189	27	23	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2025283--2025331	19	2.7	17	84	9	53	26	18	30	24	1.98
2025283--2025462	64	2.8	61	76	14	177	28	17	25	29	1.97
2025473--2025519	21	2.2	21	84	0	58	21	17	25	36	1.94
2033230--2033259	15	2.0	15	100	0	60	46	6	6	40	1.56
2033898--2033946	19	2.7	17	84	9	53	26	18	30	24	1.98
2033918--2034189	64	4.2	63	81	6	246	27	16	23	31	1.96
2034087--2034125	19	2.1	19	90	0	60	30	15	35	17	1.91
2034151--2034190	21	1.9	21	100	0	80	25	15	27	32	1.95
2034151--2034197	21	2.2	21	92	0	76	23	14	25	36	1.93
2037506--2037583	21	3.5	22	75	8	68	26	25	20	26	1.99
2040140--2040347	65	3.2	63	76	15	192	32	24	17	25	1.97
2041509--2041770	54	4.9	54	83	3	348	29	17	18	34	1.94
2041917--2041974	2	29.0	2	100	0	116	50	0	0	50	1.00
2046582--2046778	66	3.0	65	73	13	181	32	22	17	27	1.96
2046622--2046778	66	2.4	64	87	4	226	31	21	18	28	1.97
2055308--2055345	20	1.9	20	94	0	67	31	34	15	18	1.92
2055308--2055513	66	3.2	64	79	13	206	32	23	17	27	1.97
2056531--2056585	21	2.7	21	94	2	94	30	16	27	25	1.96
2056996--2057226	54	4.3	54	92	0	372	26	19	22	32	1.97
2057032--2057248	108	2.0	108	86	0	299	29	18	19	31	1.96
2057032--2057280	108	2.3	108	82	0	264	29	17	21	31	1.96
2058511--2058551	20	2.0	20	100	0	82	31	9	19	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2059602--2059646	2	22.5	2	100	0	90	51	0	0	48	1.00
2060412--2060582	58	3.0	56	64	15	132	39	19	9	30	1.85
2060412--2060641	116	2.0	116	98	0	442	40	20	9	29	1.84
2061149--2061180	14	2.3	14	94	0	55	53	0	3	43	1.16
2061406--2061480	22	3.1	22	73	19	69	57	5	1	36	1.30
2061549--2061699	79	1.9	79	84	7	202	45	2	2	49	1.30
2061630--2061662	14	2.5	13	90	9	57	45	0	0	54	0.99
2061565--2061681	40	2.9	39	70	11	112	47	2	2	47	1.29
2062082--2062119	20	2.0	20	90	10	62	50	10	21	18	1.76
2062081--2062125	20	2.6	16	80	19	54	46	11	20	22	1.81

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