genome.fa.s6936.2.7.7.80.10.50.1000.8.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: VEPZ01006936.1 Hibiscus syriacus cultivar Beakdansim tig00017808_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2176229

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 982 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)
1871169--1871397	114	2.0	114	91	0	368	40	8	13	36	1.76
1872218--1872250	14	2.3	15	89	5	50	39	9	9	42	1.68
1872552--1872607	11	5.5	11	72	22	50	48	0	0	51	1.00
1872581--1872661	27	3.0	27	94	1	135	44	2	0	53	1.14
1872765--1872810	22	2.0	23	84	12	60	56	0	2	41	1.11
1873564--1873590	14	1.9	14	100	0	54	62	7	0	29	1.22
1876928--1876962	13	2.7	13	100	0	70	8	31	22	37	1.85
1884900--1884934	2	17.5	2	100	0	70	48	0	0	51	1.00
1887316--1887358	21	2.3	19	84	15	54	27	18	23	30	1.98
1889479--1889516	20	1.9	20	88	0	58	21	26	10	42	1.85
1890259--1890292	12	2.7	13	86	9	52	50	5	8	35	1.58
1890786--1890862	21	3.5	22	85	7	104	35	14	20	29	1.92
1892516--1892561	18	2.6	18	89	0	65	39	13	4	43	1.63
1892877--1892901	12	2.1	12	100	0	50	24	24	16	36	1.94
1896661--1896711	19	2.7	19	93	0	93	21	23	25	29	1.99
1897493--1898019	264	2.0	264	96	0	964	38	9	17	35	1.81
1901240--1901290	26	1.9	27	92	4	86	31	7	11	49	1.68
1904103--1904263	69	2.3	70	84	6	204	36	10	22	31	1.88
1904300--1904403	50	2.1	49	87	5	149	40	6	20	32	1.78
1906993--1907050	20	2.6	23	86	10	77	27	22	20	29	1.99
1925816--1925916	24	4.3	25	71	9	72	34	22	19	22	1.96
1935625--1935659	15	2.4	14	86	9	52	40	2	2	54	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1936772--1936824	3	17.0	3	88	7	79	35	0	0	64	0.94
1949568--1949624	10	6.2	10	75	17	52	82	0	17	0	0.67
1949568--1949612	15	3.1	14	90	9	72	84	0	15	0	0.62
1949568--1949614	10	4.7	10	81	7	60	85	0	14	0	0.61
1949565--1949623	15	3.7	15	82	11	64	83	0	16	0	0.66
1949565--1949612	16	3.1	15	82	14	62	83	0	16	0	0.65
1949565--1949614	26	1.9	26	92	8	84	84	0	16	0	0.63
1950984--1951187	83	2.5	83	98	0	390	25	12	23	38	1.90
1951938--1952714	113	6.8	113	91	2	1180	38	14	19	28	1.90
1952654--1952858	36	5.5	36	88	8	270	48	10	21	19	1.78
1952654--1952839	76	2.4	76	93	0	318	47	10	22	19	1.79
1952654--1952808	40	3.9	42	81	14	204	49	10	21	18	1.77
1953215--1953258	3	14.0	3	86	9	61	36	0	0	63	0.95
1953660--1953695	18	1.9	19	88	5	56	66	22	11	0	1.22
1957355--1957407	21	2.5	21	87	0	79	20	24	18	35	1.95
1957397--1957505	20	5.4	20	95	0	191	40	25	18	15	1.90
1957496--1957582	20	4.3	20	94	2	140	31	27	18	22	1.97
1957397--1957524	40	3.2	40	86	8	163	39	25	17	16	1.91
1958423--1958476	24	2.2	24	93	0	90	20	18	20	40	1.91
1960965--1961140	20	9.5	20	72	13	101	43	22	18	15	1.87
1960978--1961139	73	2.2	73	94	0	279	43	22	17	16	1.87
1961006--1961151	33	4.2	34	71	14	100	41	23	19	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1961478--1961543	22	3.0	22	88	0	96	22	15	37	24	1.92
1961719--1961770	20	2.6	20	100	0	104	23	21	25	30	1.99
1961757--1961806	20	2.5	20	93	0	82	22	18	18	42	1.90
1961808--1961851	21	2.1	21	86	0	61	40	13	25	20	1.89
1962260--1962319	31	1.9	31	90	6	95	41	5	10	43	1.60
1962776--1962837	18	3.2	20	78	19	62	61	0	1	37	1.06
1962886--1962936	12	4.3	12	76	14	52	64	1	0	33	1.05
1963314--1963376	23	2.7	23	87	0	90	36	17	20	25	1.94
1974721--1974799	20	4.0	20	89	0	122	25	26	22	25	2.00
1974975--1975016	22	1.9	22	90	0	66	26	42	11	19	1.85
1975436--1975484	20	2.5	20	89	0	71	18	18	26	36	1.94
1977215--1977264	18	2.8	18	100	0	100	32	20	6	42	1.76
1977410--1977450	20	2.0	20	95	0	73	12	19	24	43	1.85
1979403--1979464	14	4.3	14	73	6	52	38	1	14	45	1.55
1979579--1979616	20	1.9	19	89	5	58	50	18	21	10	1.76
1979659--1979727	20	3.5	20	83	0	75	27	20	21	30	1.98
1979800--1979911	20	5.9	20	73	12	101	25	16	23	34	1.95
1979627--1979814	34	5.4	33	76	11	162	23	18	21	36	1.95
1979768--1979900	54	2.5	54	90	2	196	24	15	24	36	1.94
1979884--1980151	140	1.9	140	94	0	473	42	14	13	29	1.84
1982281--1982317	14	2.6	14	91	4	56	5	21	21	51	1.68
1983362--1983429	20	3.4	21	91	4	97	27	19	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983396--1983469	20	3.7	20	89	3	96	27	20	16	36	1.93
1985284--1985405	63	2.0	62	82	11	151	45	7	4	42	1.53
1994643--1994685	18	2.4	18	92	0	68	20	6	0	72	1.08
1998931--1998969	18	2.2	18	85	0	51	23	7	0	69	1.14
1999147--1999233	41	2.1	41	100	0	174	39	17	11	32	1.85
2001090--2001145	26	2.2	26	96	0	103	37	14	3	44	1.62
2003956--2004019	32	2.0	32	100	0	128	37	21	18	21	1.94
2011007--2011294	41	7.0	41	78	5	186	37	15	17	30	1.91
2011059--2011294	123	1.9	122	83	4	305	38	16	17	27	1.91
2011066--2011309	41	6.0	41	82	0	274	38	16	18	26	1.92
2012443--2012475	17	1.9	17	93	0	57	42	9	6	42	1.61
2020408--2020458	22	2.3	22	96	0	93	43	17	15	23	1.88
2023592--2023630	20	2.0	20	94	0	69	28	10	20	41	1.85
2023730--2023781	17	3.0	17	86	8	70	38	15	7	38	1.76
2026747--2026815	18	3.9	17	75	9	68	36	15	7	40	1.76
2028075--2028099	9	2.8	9	100	0	50	12	44	0	44	1.41
2030052--2030094	17	2.5	17	96	3	77	41	16	9	32	1.80
2031469--2031520	20	2.6	20	76	11	61	28	0	36	34	1.58
2037872--2037979	30	3.5	30	77	7	94	23	21	6	49	1.72
2038074--2038433	48	7.5	48	86	0	477	36	26	13	23	1.92
2038598--2038648	27	1.9	26	84	11	68	54	1	5	37	1.36
2045668--2045734	21	3.2	21	80	0	80	37	10	23	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2049133--2049166	18	1.9	18	88	5	52	70	5	0	23	1.09
2050097--2050145	24	2.0	24	88	0	71	12	10	4	73	1.22
2051098--2051132	12	2.9	12	86	0	52	48	20	2	28	1.63
2056806--2056847	20	2.1	20	90	0	66	35	21	9	33	1.86
2062195--2062231	18	2.1	18	100	0	74	27	35	10	27	1.90
2072253--2072292	14	2.9	14	88	7	55	40	27	7	25	1.82
2077380--2077455	24	3.3	23	85	5	93	32	26	15	25	1.95
2078900--2079368	58	8.3	58	85	4	584	35	13	19	32	1.90
2078900--2079383	114	4.3	114	87	2	636	35	12	19	32	1.89
2079575--2079867	68	4.3	68	82	1	336	31	13	24	30	1.94
2079829--2079977	81	1.8	81	83	0	199	35	11	22	30	1.90
2080011--2080106	45	2.1	45	94	0	165	37	10	23	28	1.88
2084163--2084352	45	4.2	45	85	4	276	37	8	24	28	1.86
2091006--2091052	20	2.3	20	88	0	67	38	23	27	10	1.88
2091026--2091091	30	2.2	30	86	0	87	37	24	25	12	1.90
2104494--2104532	21	1.9	20	85	15	53	41	0	5	53	1.23
2105928--2105963	2	19.0	2	88	11	58	47	0	0	52	1.00
2106890--2106935	20	2.3	20	92	0	83	30	19	17	32	1.95
2108256--2108291	17	2.1	17	100	0	72	44	16	11	27	1.82
2119662--2119725	31	2.1	31	93	0	110	23	3	35	37	1.71
2121347--2121402	26	2.2	26	86	0	76	23	7	30	39	1.81
2122131--2123237	548	2.0	549	95	0	1982	31	15	22	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2128476--2128534	26	2.3	26	94	2	102	22	13	28	35	1.92
2135961--2135991	12	2.6	12	89	0	53	6	29	0	64	1.18
2139815--2140634	81	10.1	81	91	0	1246	37	10	20	31	1.87
2140677--2140793	45	2.6	45	86	2	146	46	8	20	24	1.79
2145500--2146709	81	15.0	81	88	1	1687	37	10	19	31	1.87
2146763--2146880	45	2.6	46	83	2	132	46	9	17	26	1.78
2151725--2152784	81	13.1	81	86	3	1413	37	10	20	31	1.86
2151725--2152748	329	3.2	327	86	4	1371	37	10	20	31	1.87
2151725--2152784	410	2.6	399	85	4	1409	37	10	20	31	1.86
2152827--2152944	45	2.6	45	83	2	139	46	8	21	23	1.78

Tables:   1   2   3   4   5   6   7   8   9