genome.fa.s8495.2.7.7.80.10.50.1000.9.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  9  of  21  ( 2505 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)
1827296--1827360	3	21.0	3	81	9	69	38	1	0	60	1.07
1827303--1827359	19	2.9	19	78	21	64	38	1	0	59	1.08
1827297--1827360	28	2.4	25	85	10	83	39	1	0	59	1.07
1827313--1827360	22	2.4	19	89	10	69	39	0	0	60	0.97
1828636--1828697	28	2.2	28	83	11	74	29	3	4	62	1.31
1828954--1828988	16	2.2	16	89	0	52	45	0	0	54	0.99
1838994--1839333	93	3.7	93	91	0	520	27	14	21	36	1.92
1840189--1840939	113	6.7	112	83	9	764	38	13	18	29	1.89
1840527--1840577	16	3.1	16	71	15	50	49	9	17	23	1.77
1840736--1841027	124	2.4	124	87	7	395	42	16	17	22	1.88
1841162--1841222	3	20.0	3	77	9	61	39	1	0	59	1.08
1842558--1842593	19	1.9	19	88	5	56	61	0	0	38	0.96
1842646--1842692	17	2.8	17	80	0	58	44	0	2	53	1.12
1846474--1846505	15	2.1	15	94	0	55	28	18	6	46	1.73
1850232--1850268	18	2.0	19	89	5	58	24	13	0	62	1.31
1853780--1853815	10	3.5	10	96	3	63	88	0	11	0	0.50
1853777--1853816	15	2.6	15	92	4	62	87	0	12	0	0.54
1854810--1855567	94	8.1	93	92	3	1204	29	15	20	34	1.93
1856390--1857235	113	7.6	112	84	6	1091	37	14	17	30	1.90
1856941--1856999	19	3.0	20	66	14	59	45	11	22	20	1.83
1856942--1857006	20	3.3	20	68	12	62	41	12	21	24	1.87
1856390--1857235	335	2.6	325	86	5	1144	37	14	17	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1857167--1857442	120	2.3	117	84	4	340	42	15	17	23	1.88
1857576--1857648	3	24.7	3	94	2	94	41	0	0	58	0.98
1859015--1859077	20	3.1	19	75	24	58	26	4	3	65	1.28
1862952--1863004	21	2.5	21	80	17	65	66	9	3	20	1.37
1863431--1863511	13	6.5	13	69	27	59	38	1	0	60	1.05
1863426--1863511	16	5.7	15	77	11	70	38	2	0	59	1.10
1874489--1874542	3	18.0	3	85	14	76	37	0	0	62	0.95
1875969--1876160	30	6.4	30	76	5	174	18	14	10	56	1.66
1875955--1876071	60	2.0	60	84	3	155	20	11	9	58	1.61
1875969--1876160	90	2.1	90	80	7	203	18	14	10	56	1.66
1882040--1882139	35	2.9	35	83	7	114	30	17	11	42	1.83
1882320--1882397	31	2.5	31	81	8	95	29	16	14	39	1.88
1882328--1882406	31	2.6	31	86	4	108	35	16	10	37	1.82
1882538--1882723	82	2.3	83	82	2	223	27	33	16	22	1.95
1883884--1883949	21	3.0	23	71	8	73	37	24	16	21	1.93
1886295--1886349	20	2.8	19	76	10	58	30	20	0	49	1.49
1888759--1888796	20	2.0	19	85	10	51	28	18	13	39	1.88
1891089--1891177	30	3.0	29	71	15	74	12	11	12	64	1.51
1891071--1891275	60	3.4	60	80	4	225	15	12	9	62	1.53
1891100--1891326	30	7.5	30	74	10	122	14	14	10	59	1.61
1891071--1891311	60	4.0	59	77	6	182	14	13	9	61	1.56
1891231--1891305	29	2.5	29	77	12	80	16	12	12	60	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1892216--1892258	22	1.9	23	90	4	70	39	0	6	53	1.28
1908503--1908562	21	2.9	21	82	7	70	20	35	28	16	1.94
1908503--1908562	20	3.0	20	80	9	77	20	35	28	16	1.94
1909201--1909356	64	2.4	64	84	4	181	29	22	15	32	1.95
1918923--1918961	20	2.0	20	84	0	51	23	7	23	46	1.78
1919138--1919176	20	1.9	20	89	5	60	12	25	33	28	1.93
1926970--1927002	12	2.6	13	85	9	50	48	12	0	39	1.40
1930481--1930527	14	3.3	14	90	3	76	27	34	0	38	1.57
1932678--1932731	26	2.1	26	85	0	72	42	18	7	31	1.78
1932726--1932758	14	2.4	14	90	5	50	45	24	3	27	1.68
1933942--1934029	26	3.4	26	96	0	167	36	22	15	25	1.94
1937786--1937831	20	2.2	21	96	3	85	71	8	4	15	1.26
1939061--1939102	21	1.9	22	85	9	59	26	19	23	30	1.98
1942522--1942605	27	2.9	27	81	15	80	36	2	0	60	1.10
1942571--1942672	31	3.2	32	83	6	129	37	3	0	57	1.24
1942532--1942672	31	4.7	30	76	16	125	37	3	0	58	1.21
1942780--1942825	14	3.4	14	74	17	51	56	0	0	43	0.99
1942757--1942800	23	2.0	23	95	4	81	59	0	0	40	0.98
1942810--1942858	25	2.0	25	84	4	64	51	2	4	42	1.32
1950234--1950269	15	2.4	15	90	0	54	55	5	2	36	1.38
1950477--1950521	17	2.6	16	83	13	54	40	2	26	31	1.68
1957557--1957598	17	2.5	17	84	0	57	30	14	11	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1957653--1957698	18	2.6	18	92	0	74	32	6	13	47	1.68
1961172--1961211	17	2.4	17	86	0	53	32	15	12	40	1.84
1961218--1961276	17	3.5	17	68	13	50	30	13	8	47	1.73
1961265--1961312	18	2.7	18	86	0	69	33	6	10	50	1.62
1965930--1965986	2	29.0	2	78	3	62	49	7	0	43	1.29
1965931--1965981	17	2.9	17	88	2	66	50	7	0	41	1.31
1968915--1969003	3	29.7	3	82	13	112	31	0	2	66	1.04
1968915--1969016	18	5.3	19	80	14	104	33	0	1	64	1.05
1972230--1972301	36	2.0	36	86	0	99	41	16	12	29	1.85
1972765--1972849	42	2.0	43	88	6	129	30	11	22	35	1.90
1972923--1972962	21	1.9	21	89	0	62	17	20	7	55	1.66
1976968--1977054	39	2.2	40	89	2	131	35	16	24	24	1.94
1978011--1978172	54	3.0	53	89	3	225	37	14	22	25	1.92
1979226--1979606	45	8.4	45	88	0	474	27	22	19	31	1.98
1979226--1979606	135	2.8	135	86	0	528	27	22	19	31	1.98
1979667--1980158	39	12.7	39	87	0	664	43	12	21	21	1.86
1979667--1980158	193	2.5	195	87	3	713	43	12	21	21	1.86
1979674--1980111	232	1.9	232	88	1	664	42	13	21	21	1.87
1980359--1980395	3	12.0	3	88	5	56	32	0	2	64	1.07
1981501--1981546	18	2.6	17	81	18	51	36	0	2	60	1.09
1982430--1982562	66	2.0	66	95	0	239	24	11	30	34	1.90
1985920--1985960	18	2.3	18	95	0	73	41	14	21	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1993723--1993772	23	2.2	23	96	0	91	22	16	14	48	1.81
1995617--1995946	163	2.0	166	97	1	630	35	22	8	33	1.84
1996348--1996538	102	1.9	103	92	1	321	30	27	18	23	1.97
1999452--1999505	20	2.7	18	81	16	54	72	5	5	16	1.23
2008319--2008376	2	29.0	2	93	6	100	50	0	1	48	1.11
2008452--2008614	85	1.9	85	80	5	186	30	19	18	31	1.95
2008595--2008643	13	3.8	13	78	10	55	36	18	14	30	1.90
2014616--2014641	13	2.0	13	100	0	52	7	23	0	69	1.14
2026074--2026098	13	1.9	13	100	0	50	36	16	24	24	1.94
2030468--2030519	24	2.2	24	85	0	68	25	19	19	36	1.95
2037243--2037303	23	2.8	21	77	15	61	21	21	32	24	1.98
2044189--2044221	5	6.8	5	86	6	50	78	0	18	3	0.87
2045345--2045424	37	2.2	37	93	0	133	12	11	40	36	1.79
2045345--2045452	37	3.2	32	85	7	126	12	10	37	39	1.76
2045957--2046042	44	2.0	44	92	0	145	34	20	13	30	1.92
2046030--2046077	18	2.8	17	87	3	69	31	29	8	31	1.87
2046131--2046171	3	14.0	3	89	5	66	31	0	0	68	0.90
2046263--2046307	14	3.4	14	73	17	51	35	46	13	4	1.63
2046261--2046317	25	2.3	25	90	0	87	35	43	12	8	1.73
2046982--2047036	19	2.7	22	76	21	66	23	12	9	54	1.66
2046991--2047029	19	2.1	19	95	0	69	23	15	7	53	1.67
2079716--2079831	27	4.2	27	74	6	90	42	18	10	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2082233--2082483	124	2.1	120	91	3	412	40	6	15	37	1.73
2083432--2083607	90	2.0	90	98	0	343	26	22	10	40	1.86
2083789--2083854	3	22.0	3	73	11	55	3	34	0	62	1.11
2083792--2083854	15	4.4	15	80	15	80	3	34	0	61	1.12
2083789--2083843	27	2.0	27	96	0	101	1	34	0	63	1.05
2083795--2083854	27	2.2	27	87	0	93	3	35	0	61	1.12
2085360--2085402	18	2.4	18	96	0	77	72	4	4	18	1.20
2086015--2086202	75	2.6	73	88	4	263	56	12	0	29	1.40
2086098--2086145	25	2.0	24	83	4	60	62	12	2	22	1.40
2086156--2086195	19	2.0	20	85	4	55	55	12	0	32	1.38

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21