genome.fa.s2.2.7.7.80.10.50.1000.9.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: VEPZ01000002.1 Hibiscus syriacus cultivar Beakdansim tig00000003_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2131600

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  9  of  10  ( 1119 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)
1911419--1911448	15	1.9	16	93	6	53	16	3	0	80	0.85
1912706--1912760	24	2.3	24	81	6	58	58	1	3	36	1.26
1916148--1916187	20	2.0	21	85	14	57	42	5	7	45	1.54
1916357--1916565	65	3.2	64	81	6	217	31	24	16	27	1.97
1916404--1916582	65	2.8	65	84	0	225	29	25	17	27	1.97
1922344--1922467	44	2.8	42	78	8	131	29	26	18	25	1.98
1923702--1923741	20	2.0	21	85	14	57	42	5	7	45	1.54
1923911--1923963	18	2.9	18	91	2	79	30	28	16	24	1.97
1923928--1924135	65	3.2	63	83	5	229	30	24	16	28	1.96
1930493--1930569	22	3.5	22	96	1	138	14	23	42	19	1.87
1939039--1939085	24	2.0	24	83	8	60	57	12	2	27	1.47
1942239--1942276	20	1.9	19	89	5	58	65	0	13	21	1.26
1949116--1949162	24	2.0	24	83	8	60	57	12	2	27	1.47
1951193--1951304	56	2.1	53	88	5	161	13	7	20	58	1.58
1954093--1954138	20	2.3	20	88	3	67	26	13	4	56	1.55
1954102--1954141	20	2.0	20	100	0	80	25	10	5	60	1.49
1957101--1957185	42	2.0	42	88	0	125	40	7	8	44	1.61
1969121--1969190	32	2.2	32	84	5	88	24	20	15	40	1.91
1970346--1970396	20	2.5	20	100	0	102	29	21	13	35	1.92
1975972--1976011	20	2.0	21	85	5	55	22	20	17	40	1.92
1979003--1979168	83	2.0	83	100	0	332	40	20	15	22	1.90
1979141--1979493	154	2.3	153	82	4	417	44	11	14	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983070--1983130	31	1.9	32	84	15	83	39	6	1	52	1.37
1983406--1983431	13	2.0	13	100	0	52	61	0	0	38	0.96
1987889--1987928	21	1.9	21	84	0	53	45	2	0	52	1.14
1988324--1988364	2	20.5	2	89	0	64	51	4	0	43	1.23
1988543--1988583	21	2.0	21	100	0	82	39	4	0	56	1.21
1988797--1988883	3	30.3	3	90	9	146	66	0	0	33	0.92
1989821--1989866	23	2.0	22	84	12	58	34	4	0	60	1.16
1993095--1993146	17	2.7	19	74	17	54	38	30	26	3	1.74
1996036--1996074	18	2.2	18	85	0	51	5	10	41	43	1.61
1996795--1996863	12	6.0	12	71	20	58	46	2	0	50	1.16
1996817--1996863	18	2.8	16	84	12	58	46	2	0	51	1.13
1997018--1997068	15	3.3	15	71	15	50	50	3	3	41	1.39
1997092--1997131	21	1.9	21	89	0	62	47	5	7	40	1.54
1997292--1997328	19	1.9	19	94	0	65	32	29	16	21	1.95
1997655--1997704	22	2.3	22	93	3	84	20	46	14	20	1.84
1998104--1998177	20	3.7	20	85	0	85	16	16	24	43	1.87
1998144--1998187	20	2.2	20	91	0	70	11	13	20	54	1.69
2000080--2000148	20	3.5	20	83	0	93	37	26	18	17	1.93
2000140--2000214	33	2.2	34	88	2	116	48	18	17	16	1.82
2000170--2000202	14	2.4	14	94	0	57	48	15	18	18	1.81
2000230--2000278	20	2.5	20	93	0	80	16	22	24	36	1.94
2000265--2000308	20	2.2	20	95	0	79	13	13	22	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2000814--2000906	42	2.2	43	84	7	120	23	36	19	20	1.95
2000784--2000891	21	5.1	21	72	8	85	21	36	18	24	1.95
2000837--2000906	21	3.3	20	70	7	52	24	35	20	20	1.96
2002289--2002325	14	2.6	14	100	0	74	29	0	21	48	1.50
2002459--2002522	20	3.2	20	93	0	110	45	23	18	12	1.84
2002561--2002691	20	6.8	20	81	10	157	25	19	21	33	1.97
2002527--2002663	34	3.9	34	78	12	141	22	19	21	35	1.96
2002521--2002691	74	2.3	74	88	4	247	25	19	20	35	1.96
2002581--2002683	54	1.9	54	92	4	172	24	18	23	33	1.96
2002662--2002944	140	2.0	140	95	0	512	43	16	13	27	1.85
2002999--2003036	18	2.1	18	95	0	67	15	2	23	57	1.51
2005068--2005104	14	2.6	14	91	4	56	5	21	21	51	1.68
2005294--2005347	24	2.2	24	93	0	90	40	20	18	20	1.91
2005294--2005361	24	2.8	24	84	0	64	38	20	17	23	1.93
2006218--2006265	20	2.4	20	100	0	96	41	25	18	14	1.88
2006287--2006334	19	2.5	19	89	3	69	20	14	29	35	1.93
2007727--2007782	24	2.3	24	93	0	94	46	7	14	32	1.71
2009942--2010050	24	4.5	24	74	4	85	20	11	16	52	1.73
2012126--2012170	20	2.2	20	88	0	72	20	42	20	17	1.90
2012128--2012188	25	2.4	25	83	5	70	21	42	21	14	1.88
2014105--2014198	48	2.0	48	84	0	125	22	12	17	47	1.81
2014105--2014181	24	3.2	24	84	0	100	20	15	18	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2014961--2015029	22	3.4	19	77	18	59	43	5	7	43	1.56
2014980--2015033	24	2.2	25	80	9	67	46	5	7	40	1.55
2015011--2015044	13	2.5	13	90	4	50	41	2	8	47	1.50
2014961--2015065	20	5.5	20	69	10	69	42	6	6	43	1.57
2014966--2015103	55	2.5	57	85	5	185	42	7	7	42	1.60
2015148--2015249	28	3.6	28	77	6	109	17	0	32	50	1.47
2015148--2015249	7	14.6	7	77	4	80	17	0	32	50	1.47
2015242--2015334	48	1.9	47	86	4	132	32	5	11	50	1.62
2015321--2015357	15	2.4	16	82	13	51	32	0	10	56	1.34
2015332--2015380	23	2.1	24	88	3	73	40	2	6	51	1.38
2015349--2015391	20	2.2	19	91	4	68	41	4	4	48	1.44
2015700--2015830	13	9.6	15	70	21	58	38	4	5	51	1.45
2015633--2015768	65	2.1	65	81	10	154	39	3	5	51	1.42
2015784--2015855	28	2.6	28	84	8	87	44	5	4	45	1.46
2015669--2015849	81	2.2	81	83	8	217	41	4	3	49	1.42
2015783--2015930	13	11.6	13	68	17	62	43	4	3	47	1.40
2015869--2015902	18	1.9	17	94	5	59	47	0	5	47	1.26
2016908--2016966	30	2.0	30	96	0	109	37	13	8	40	1.75
2018033--2018093	32	1.9	32	89	0	95	55	6	16	21	1.63
2018679--2018730	20	2.6	20	84	0	59	36	17	25	21	1.94
2019265--2019314	3	16.7	3	80	15	59	34	0	0	66	0.92
2019265--2019324	23	2.6	24	82	15	81	35	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2019265--2019321	16	3.5	16	88	4	78	35	0	0	64	0.93
2022110--2022205	30	3.2	30	95	2	174	46	10	18	23	1.80
2025935--2025976	21	1.9	21	85	9	57	52	0	4	42	1.22
2026020--2026085	33	2.0	33	87	0	96	43	4	7	43	1.53
2026213--2026275	29	2.2	29	94	0	108	39	7	6	46	1.59
2026336--2026394	24	2.5	24	80	5	66	42	5	6	45	1.52
2026411--2026491	9	8.8	9	70	17	51	49	6	1	43	1.35
2026449--2026715	2	127.0	2	66	25	92	44	7	4	44	1.50
2026389--2026526	56	2.4	58	77	11	151	46	5	2	44	1.42
2026449--2026715	9	31.8	8	66	25	92	44	7	4	44	1.50
2026626--2026722	7	13.9	7	93	4	160	44	12	0	43	1.42
2026795--2026864	34	2.1	34	83	0	86	45	5	2	45	1.41
2026830--2026864	15	2.4	14	95	4	61	45	5	0	48	1.26
2026985--2027068	33	2.6	33	84	3	100	46	4	5	42	1.49
2026928--2027039	18	6.7	18	68	20	50	44	4	8	42	1.54
2027052--2027122	25	2.8	25	91	2	115	46	5	1	46	1.35
2027401--2027626	104	2.2	104	89	0	355	33	29	5	31	1.80
2027533--2027746	106	2.0	109	80	9	240	33	29	5	31	1.79
2027934--2028050	24	4.9	24	72	3	101	41	41	7	8	1.64
2027991--2028052	30	2.1	30	90	6	99	41	45	4	8	1.55
2027924--2028040	42	2.8	41	75	7	119	41	43	6	8	1.62
2027924--2028052	6	21.5	6	76	3	80	41	44	6	7	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2030620--2030687	20	3.4	20	87	0	91	16	8	17	57	1.64
2031413--2031470	19	2.9	19	84	7	62	60	0	6	32	1.23
2031606--2031643	16	2.4	16	95	0	67	42	13	18	26	1.87
2034654--2034700	2	23.0	2	91	4	76	48	0	4	46	1.21
2040621--2040810	20	9.5	20	89	2	274	27	17	23	32	1.97
2041105--2041206	42	2.4	42	83	0	114	31	18	25	24	1.98
2041486--2041535	11	4.9	10	77	17	50	40	0	0	60	0.97
2044823--2044863	13	3.1	13	89	10	57	75	0	4	19	0.98
2044808--2044877	32	2.2	31	82	10	79	72	2	5	18	1.17
2046166--2046220	18	3.0	19	79	12	62	47	3	7	41	1.49

Tables:   1   2   3   4   5   6   7   8   9   10