genome.fa.s8737.2.7.7.80.10.50.1000.10.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: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2791265

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

This is table  10  of  14  ( 1580 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)
1947421--1948119	120	5.8	120	91	0	1085	31	24	16	27	1.96
1947191--1948123	360	2.6	349	86	3	1276	32	24	16	26	1.96
1948028--1948116	32	2.7	34	74	10	94	33	29	14	22	1.94
1947191--1948119	240	3.9	239	87	2	1270	32	24	16	26	1.96
1949942--1949982	19	2.2	19	86	8	57	24	2	2	70	1.11
1950176--1950279	3	33.3	3	75	19	56	30	3	0	65	1.10
1950232--1950354	27	4.8	25	71	16	92	21	5	0	72	1.10
1950200--1950318	61	1.9	62	83	14	158	26	5	0	68	1.12
1950288--1950353	5	13.6	5	81	15	61	19	3	1	75	1.01
1950289--1950342	19	2.9	18	86	10	74	20	3	0	75	0.95
1950537--1950561	2	12.5	2	100	0	50	48	0	0	52	1.00
1950670--1950711	5	8.6	5	94	5	77	19	0	0	80	0.70
1952044--1952154	35	3.2	35	68	13	93	39	4	9	46	1.56
1952030--1952188	70	2.3	70	85	3	214	40	5	7	46	1.56
1953421--1953656	44	5.6	41	72	16	171	48	9	17	24	1.77
1953448--1953519	35	2.0	35	86	2	99	45	11	19	23	1.82
1953480--1953741	42	6.1	44	75	8	218	53	7	15	24	1.67
1953504--1953707	84	2.4	84	86	9	270	51	7	16	24	1.70
1959704--1959869	85	2.0	85	80	4	192	31	17	18	32	1.94
1959851--1959908	13	4.5	13	93	0	89	34	12	20	32	1.90
1963781--1963822	21	2.0	21	85	0	57	54	16	11	16	1.70
1967669--1967712	23	1.9	23	95	0	79	36	15	9	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1971992--1972262	54	5.1	54	86	4	370	33	18	17	30	1.94
1975743--1975771	15	1.9	15	100	0	58	68	13	10	6	1.37
1987651--1987702	21	2.4	21	81	9	61	15	19	7	57	1.62
1988472--1988854	189	2.0	192	97	2	736	24	22	27	24	2.00
1996533--1996575	19	2.3	18	84	11	52	44	0	2	53	1.13
1997406--1997435	2	15.0	2	100	0	60	50	0	0	50	1.00
2002045--2002639	183	3.3	183	90	2	874	44	11	14	29	1.80
2002494--2002799	162	1.9	161	91	2	499	44	11	16	28	1.81
2005511--2005550	18	2.4	17	87	8	55	65	0	15	20	1.28
2007377--2007462	39	2.2	39	97	0	163	30	22	12	34	1.91
2007590--2008740	200	5.7	199	89	3	1522	40	15	14	29	1.87
2010211--2010245	18	1.9	18	94	0	61	48	2	28	20	1.63
2013085--2013114	15	2.0	15	100	0	60	46	20	6	26	1.75
2013225--2014366	199	5.8	199	88	1	1558	39	14	14	31	1.86
2013225--2014366	397	2.9	395	87	2	1583	39	14	14	31	1.86
2015186--2015233	19	2.5	19	89	0	78	29	2	10	58	1.43
2018396--2018558	87	1.9	87	94	0	290	33	12	11	42	1.80
2018480--2018524	23	2.0	23	90	0	72	37	17	8	35	1.81
2018849--2018933	38	2.2	38	93	0	152	40	4	22	32	1.75
2020931--2021082	19	7.7	19	70	10	65	38	25	17	18	1.93
2021050--2021100	19	2.6	19	87	9	68	43	27	17	11	1.84
2021051--2021193	37	3.8	37	74	16	125	37	25	17	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2021050--2021195	20	7.7	19	72	15	108	36	26	17	19	1.94
2021565--2021632	30	2.2	31	84	7	84	11	23	19	45	1.83
2021712--2021815	21	5.4	20	73	15	96	45	19	24	11	1.83
2021712--2021788	21	3.8	20	82	5	100	45	16	24	12	1.83
2021711--2021788	41	1.9	41	97	0	147	44	16	25	12	1.83
2021772--2021828	14	3.7	14	72	20	51	45	22	22	8	1.80
2021764--2021844	33	2.5	33	93	0	135	48	22	20	8	1.77
2023672--2023793	39	3.1	39	82	2	156	39	36	10	13	1.79
2025235--2025272	19	2.0	19	100	0	76	36	15	26	21	1.93
2029038--2029072	3	11.7	3	100	0	70	65	0	0	34	0.93
2029414--2029806	113	3.5	113	95	1	666	28	19	13	39	1.89
2030611--2030830	114	1.9	114	94	0	386	30	21	16	31	1.95
2031158--2031206	16	2.8	17	78	12	55	48	6	8	36	1.58
2031559--2031583	10	2.5	10	100	0	50	0	8	0	92	0.40
2031558--2031605	16	3.0	16	87	6	62	4	14	0	81	0.84
2036711--2036876	84	2.0	82	97	2	314	26	19	19	34	1.96
2041189--2041236	21	2.3	22	79	17	57	33	8	6	52	1.57
2044721--2044814	44	2.1	45	92	7	165	38	10	11	39	1.77
2054021--2054074	14	4.1	14	84	9	62	0	16	5	77	0.94
2054033--2054093	17	3.6	17	76	20	56	0	18	4	77	0.95
2054017--2054088	28	2.5	29	82	15	87	0	16	4	79	0.89
2054062--2054106	17	2.6	18	82	7	56	0	24	2	73	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2054039--2054106	35	2.0	34	85	2	91	0	22	4	73	1.01
2058067--2058101	16	2.2	16	89	0	52	57	5	11	25	1.56
2058161--2058197	16	2.3	16	90	0	56	35	5	32	27	1.79
2058303--2058573	135	2.0	130	86	3	371	46	12	18	22	1.83
2058557--2058613	29	2.0	29	89	0	87	54	5	10	29	1.56
2058560--2058621	29	2.1	29	82	5	72	56	4	9	29	1.52
2059953--2060009	25	2.4	23	75	11	60	47	0	7	45	1.30
2060134--2060195	32	1.9	32	87	6	90	27	9	19	43	1.82
2074884--2074909	12	2.2	12	100	0	52	23	30	11	34	1.90
2077080--2077320	60	4.0	60	87	2	333	26	23	13	36	1.92
2078272--2078311	20	2.0	20	100	0	80	35	10	15	40	1.80
2081040--2081127	46	1.9	46	92	0	149	21	21	14	42	1.89
2081130--2081384	60	4.1	59	80	12	276	27	21	13	37	1.91
2081242--2081272	12	2.6	12	100	0	62	25	22	9	41	1.84
2081182--2081332	72	2.1	72	91	0	239	26	21	13	38	1.91
2081127--2081384	132	2.0	131	89	0	399	26	21	13	37	1.91
2093244--2093295	25	2.1	25	100	0	104	19	9	34	36	1.84
2102561--2102599	19	2.1	19	100	0	78	20	43	15	20	1.88
2102766--2102804	19	2.1	19	100	0	78	58	20	10	10	1.59
2103033--2103076	23	1.9	23	81	9	54	43	2	9	45	1.48
2103364--2103425	22	2.9	21	77	17	65	41	6	1	50	1.38
2103387--2103564	90	2.0	90	92	0	293	43	7	11	37	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2104598--2106228	543	3.0	542	92	2	2625	32	12	13	40	1.83
2110111--2110161	19	2.6	20	90	3	77	43	23	17	15	1.88
2110111--2110428	20	15.6	20	78	7	174	38	19	22	18	1.93
2110236--2110426	40	4.7	40	84	3	238	36	17	25	20	1.94
2110215--2110426	83	2.6	82	85	3	275	36	17	25	20	1.94
2110415--2110458	20	2.2	20	91	0	70	54	15	18	11	1.70
2110536--2110608	6	12.5	6	98	1	132	31	52	16	0	1.44
2111300--2111456	6	26.5	6	99	0	300	0	16	50	32	1.45
2111546--2111716	20	8.4	20	85	3	207	18	25	19	36	1.95
2111544--2111737	40	4.7	40	81	5	217	18	25	19	36	1.95
2111544--2111737	63	3.1	63	86	2	268	18	25	19	36	1.95
2111544--2111841	20	14.6	20	76	7	161	17	23	20	39	1.92
2112204--2112229	12	2.2	12	100	0	52	50	15	0	34	1.45
2120060--2120095	2	18.0	2	100	0	72	50	0	0	50	1.00
2123826--2123885	30	2.0	30	93	0	102	31	5	18	45	1.71
2123970--2124150	8	23.8	8	64	25	54	24	32	17	24	1.97
2123968--2124025	21	2.8	21	100	0	116	20	36	18	24	1.95
2124095--2124147	13	3.9	13	79	18	63	20	35	16	26	1.94
2124513--2124583	34	2.1	34	87	7	101	29	15	32	22	1.95
2125444--2125491	19	2.5	20	82	3	62	52	6	12	29	1.63
2126690--2126749	30	2.0	30	96	0	111	30	5	20	45	1.72
2126835--2126994	8	20.8	8	64	25	51	25	31	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2126939--2126991	13	3.9	13	79	18	63	20	35	16	26	1.94
2127357--2127427	34	2.1	34	87	7	101	29	15	32	22	1.95
2130677--2130734	26	2.2	27	79	14	68	46	1	6	44	1.40
2130741--2130785	17	2.7	16	83	16	56	15	6	0	77	0.96
2144480--2144534	24	2.3	24	96	0	101	34	5	36	23	1.78
2147183--2147465	54	5.2	54	86	0	352	29	18	19	32	1.96
2147787--2148069	54	5.2	53	85	0	341	27	17	21	33	1.95
2146937--2148146	604	2.0	601	92	1	1994	32	17	16	33	1.92
2152515--2152539	13	1.9	13	100	0	50	28	8	0	64	1.22
2155186--2155225	13	3.0	13	85	3	53	25	0	0	75	0.81

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