genome.fa.s7926.2.7.7.80.10.50.1000.9.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   

This is table  9  of  42  ( 5024 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)
1921878--1921980	30	3.5	30	79	12	106	41	7	7	42	1.62
1922800--1922871	16	4.3	16	71	22	58	6	25	1	66	1.24
1922805--1922882	35	2.2	36	88	2	113	7	26	1	64	1.29
1922800--1922877	25	3.1	25	83	1	93	7	25	1	65	1.27
1924237--1924311	25	2.9	26	90	4	116	64	1	28	6	1.27
1924243--1924311	26	2.7	25	93	2	111	65	0	28	5	1.16
1938204--1938229	2	13.0	2	100	0	52	50	0	0	50	1.00
1942110--1942199	41	2.2	42	84	6	112	26	0	30	43	1.55
1942176--1942212	14	2.6	15	83	12	51	21	0	35	43	1.53
1942176--1942247	21	3.4	21	68	21	60	25	0	33	41	1.55
1942185--1942219	14	2.5	13	86	13	52	20	0	37	42	1.52
1942154--1942248	49	1.9	49	84	0	127	27	0	30	42	1.56
1942231--1942285	28	2.0	28	85	7	76	27	0	34	38	1.57
1945121--1945167	23	2.0	23	100	0	94	34	14	8	42	1.77
1950717--1950893	44	4.0	44	79	5	171	28	15	25	30	1.96
1950778--1950938	44	3.7	44	80	9	143	29	16	22	31	1.95
1958272--1958648	82	4.6	82	75	5	262	31	20	16	31	1.95
1959365--1959456	47	2.0	44	85	10	123	29	5	23	41	1.77
1969783--1969839	23	2.5	23	88	0	96	28	24	26	21	1.99
1974529--1974573	20	2.4	19	85	7	56	40	6	26	26	1.81
1976107--1976210	53	1.9	54	88	5	158	28	7	4	58	1.46
1977276--1977321	2	23.0	2	100	0	92	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1977378--1977414	2	18.5	2	100	0	74	51	0	0	48	1.00
1977556--1978124	288	2.0	288	90	0	888	38	13	13	34	1.83
1980024--1980062	21	2.0	20	85	14	55	28	0	25	46	1.53
1980617--1980737	5	24.6	5	96	3	228	39	0	0	60	0.97
1983665--1983739	22	3.4	22	98	0	141	26	22	20	30	1.98
1997048--1997087	19	2.1	19	85	0	53	52	5	10	32	1.56
1997788--1997836	20	2.4	21	83	10	66	38	14	16	30	1.88
2001835--2001860	9	2.9	9	100	0	52	76	0	23	0	0.78
2008144--2008192	24	2.0	24	100	0	98	24	20	22	32	1.98
2008531--2008568	20	1.9	20	88	0	58	26	34	26	13	1.93
2012701--2012740	20	1.9	22	90	10	66	37	40	10	12	1.77
2014624--2014661	12	3.2	12	82	14	51	73	0	0	26	0.83
2015114--2015190	29	2.7	28	84	8	84	28	20	3	46	1.68
2017089--2017137	11	4.6	11	87	9	50	2	36	0	61	1.08
2017085--2017159	7	11.0	7	83	7	66	4	30	0	65	1.11
2017085--2017152	3	20.3	3	77	19	64	2	32	0	64	1.08
2017155--2017237	37	2.3	37	85	6	107	10	42	4	42	1.61
2018451--2018501	9	6.1	9	80	13	56	70	0	21	7	1.12
2018474--2018511	15	2.6	14	80	19	51	71	0	18	10	1.14
2025584--2025662	40	2.0	39	97	2	149	46	0	0	53	1.00
2025582--2025724	15	9.5	15	75	20	138	44	0	2	52	1.15
2025704--2025801	32	3.4	32	73	26	126	35	0	11	53	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2025727--2025769	22	2.0	22	100	0	86	34	0	13	51	1.42
2025582--2025779	69	2.9	67	84	6	229	42	0	5	52	1.25
2025704--2026242	54	9.8	53	73	17	330	33	0	13	53	1.41
2025749--2026044	80	3.7	80	91	4	504	32	0	14	53	1.42
2025828--2026194	32	12.7	30	78	16	270	33	0	13	53	1.40
2025861--2025903	22	2.0	22	95	0	77	37	0	11	51	1.39
2025749--2026108	163	2.1	169	91	6	588	32	0	14	53	1.41
2025883--2026274	112	3.5	112	87	6	612	32	0	14	53	1.41
2026033--2026085	14	3.5	14	72	18	52	33	0	7	58	1.26
2026088--2026130	22	2.0	22	100	0	86	34	0	13	51	1.42
2026024--2026305	86	3.3	86	89	5	477	33	0	13	53	1.40
2026254--2026296	22	2.0	22	100	0	86	34	0	13	51	1.42
2026056--2026306	54	4.6	54	78	13	305	33	0	13	52	1.40
2029459--2029507	20	2.5	20	100	0	98	40	12	22	24	1.88
2029459--2029515	20	2.9	19	92	5	71	42	10	24	22	1.85
2029542--2029621	35	2.3	35	95	0	142	25	5	27	42	1.75
2029715--2029772	27	2.1	27	93	0	98	46	6	5	41	1.53
2041318--2041357	19	2.1	19	85	4	53	42	12	17	27	1.85
2042650--2042746	42	2.3	42	82	7	108	38	21	16	23	1.93
2043237--2043272	15	2.4	15	100	0	72	25	5	41	27	1.77
2046865--2046923	22	2.5	24	83	10	77	30	22	13	33	1.92
2050718--2050961	65	3.6	66	70	11	206	25	20	10	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2050654--2051046	138	2.8	138	90	0	581	26	20	10	41	1.85
2050812--2051234	174	2.4	174	87	3	616	24	19	12	43	1.85
2050995--2051183	102	1.9	102	83	6	249	25	19	12	42	1.85
2051112--2051249	73	1.9	73	84	3	188	19	19	15	44	1.86
2053007--2053044	12	3.2	12	88	7	51	28	5	2	63	1.30
2053013--2053049	3	12.3	3	88	11	58	32	2	0	64	1.07
2053088--2053128	2	20.5	2	100	0	82	48	0	0	51	1.00
2053229--2053268	21	1.9	21	84	0	53	22	7	5	65	1.38
2053313--2053399	44	2.0	42	80	8	95	13	11	2	72	1.22
2053982--2054019	15	2.4	17	86	8	53	47	2	0	50	1.15
2053982--2054024	15	2.8	15	83	13	52	53	2	0	44	1.13
2056164--2056195	2	16.0	2	93	0	55	50	3	0	46	1.17
2075728--2075777	19	2.6	19	93	0	82	24	22	32	22	1.98
2075765--2075885	46	2.6	46	85	7	149	31	18	22	28	1.97
2075856--2075897	18	2.4	17	88	4	57	35	14	23	26	1.93
2075861--2075897	18	2.1	18	90	5	58	37	16	21	24	1.93
2076212--2076318	53	2.0	53	96	0	196	46	6	10	36	1.64
2076554--2076611	27	2.1	27	83	0	71	58	13	3	24	1.51
2078598--2078680	23	3.7	23	75	8	73	26	20	26	26	1.99
2078627--2078701	21	3.4	21	73	10	69	24	20	24	32	1.98
2078599--2078701	45	2.3	44	83	5	127	26	20	24	29	1.99
2082262--2082301	21	1.9	21	85	10	55	35	7	2	55	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2093081--2093122	9	4.6	9	96	3	75	11	0	21	66	1.23
2099249--2099298	10	5.0	10	82	0	55	26	30	0	44	1.55
2099323--2099367	23	2.0	22	83	12	56	31	0	4	64	1.13
2099337--2099375	18	2.2	18	95	4	71	33	0	2	64	1.08
2101245--2101270	12	2.2	12	100	0	52	34	23	34	7	1.83
2101507--2101584	35	2.2	35	80	15	90	28	8	8	53	1.62
2101507--2101594	35	2.5	36	78	14	85	27	7	9	55	1.59
2107436--2107485	20	2.5	20	96	0	91	36	34	24	6	1.80
2108856--2108956	43	2.3	43	80	9	100	29	22	11	35	1.90
2111328--2111406	38	2.1	37	80	15	92	56	10	7	25	1.58
2111335--2111414	35	2.3	35	81	12	94	56	10	7	26	1.59
2113496--2113828	111	3.0	111	97	0	621	45	11	7	36	1.69
2116857--2116885	2	14.5	2	100	0	58	51	0	0	48	1.00
2117165--2117257	27	3.4	27	87	0	141	35	20	7	36	1.81
2117580--2117631	21	2.3	22	83	9	61	23	28	23	25	1.99
2118269--2118393	31	4.0	32	75	7	121	32	22	17	27	1.96
2120772--2120796	13	1.9	13	100	0	50	20	16	0	64	1.30
2121734--2121788	28	2.0	28	85	0	74	54	16	0	29	1.42
2124683--2124723	21	2.0	20	95	4	73	34	14	21	29	1.93
2129500--2129553	20	2.7	19	75	8	63	33	31	18	16	1.93
2129581--2129811	20	11.4	20	85	3	266	36	24	19	19	1.95
2129581--2129811	40	5.7	40	92	1	329	36	24	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2129540--2129819	20	13.9	20	76	14	184	36	23	19	21	1.95
2130668--2130721	24	2.2	24	86	0	72	22	16	18	42	1.89
2133134--2133187	20	2.7	20	88	0	72	33	25	22	18	1.97
2133159--2133356	33	5.8	33	84	8	227	44	19	21	14	1.86
2133192--2133417	19	12.8	19	72	19	204	46	17	20	15	1.85
2133210--2133417	86	2.4	82	83	12	242	46	17	20	15	1.84
2133159--2133356	67	2.9	69	82	8	242	44	19	21	14	1.86
2133297--2133417	52	2.3	52	83	7	156	46	16	20	16	1.84
2133159--2133356	105	1.9	103	85	5	267	44	19	21	14	1.86
2133436--2133483	19	2.5	19	89	3	78	12	22	20	43	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42