genome.fa.s7960.2.7.7.80.10.50.1000.10.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  10  of  39  ( 4646 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)
1922111--1922140	14	2.1	15	93	6	53	0	16	6	76	0.99
1922618--1922723	3	35.7	3	89	1	160	65	0	0	33	1.06
1925745--1925922	37	4.8	37	89	6	240	47	2	6	42	1.44
1925744--1925922	75	2.4	74	86	10	249	47	2	7	42	1.45
1925751--1925952	36	5.4	37	86	7	184	45	3	7	43	1.49
1925747--1925934	39	5.0	39	87	7	200	46	3	6	43	1.45
1925986--1926029	15	3.1	14	81	12	54	18	2	0	79	0.83
1925989--1926041	24	2.1	24	82	6	61	16	1	1	79	0.92
1925977--1926042	13	4.9	14	75	14	50	21	1	1	75	0.96
1925989--1926042	26	2.1	26	82	6	65	16	1	1	79	0.91
1929074--1929103	14	2.2	14	94	5	53	80	0	0	20	0.72
1933778--1933819	21	2.0	21	95	0	75	30	14	7	47	1.71
1933814--1933912	33	3.0	33	94	1	164	32	7	15	45	1.73
1935165--1935196	16	2.0	17	88	11	50	43	21	21	12	1.86
1935439--1935520	2	41.5	2	97	2	157	51	0	0	48	1.00
1935575--1935627	24	2.2	24	83	6	63	47	13	7	32	1.70
1935673--1935716	2	22.0	2	100	0	88	50	0	0	50	1.00
1936071--1936149	34	2.2	36	80	12	94	46	0	0	53	1.00
1936071--1936175	40	2.6	39	79	7	113	45	0	0	54	0.99
1936208--1936287	36	2.2	36	88	0	115	17	37	11	33	1.85
1936965--1937027	27	2.3	27	100	0	126	58	3	6	31	1.39
1941153--1941193	5	7.8	5	89	10	64	80	0	2	17	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1941153--1941193	11	3.9	10	93	6	64	80	0	2	17	0.82
1941149--1941217	6	11.8	6	86	9	74	76	0	2	20	0.91
1941149--1941226	26	3.0	26	80	12	79	75	1	3	19	1.02
1941149--1941216	20	3.5	20	77	16	72	76	0	2	20	0.92
1941448--1941766	135	2.4	130	79	6	313	28	17	20	32	1.96
1945451--1945775	131	2.5	131	83	2	393	38	17	11	32	1.85
1946388--1946444	23	2.5	23	82	17	75	45	7	7	40	1.58
1946656--1946689	15	2.3	15	94	0	59	70	20	0	8	1.13
1947052--1947097	2	23.5	2	95	4	85	50	0	0	50	1.00
1954704--1954751	22	2.2	22	92	0	78	25	12	25	37	1.91
1955728--1955759	3	10.7	3	100	0	64	34	0	0	65	0.93
1956011--1956830	234	3.5	231	85	5	936	32	17	16	33	1.92
1962221--1962273	19	2.8	19	94	0	88	32	28	9	30	1.88
1964433--1964793	131	2.8	131	90	0	553	41	17	10	30	1.84
1967430--1967462	16	2.0	17	94	5	59	42	0	21	36	1.53
1978633--1978681	5	9.8	5	78	8	55	75	2	4	18	1.06
1978876--1978919	2	22.0	2	100	0	88	50	0	0	50	1.00
1984496--1984564	2	34.5	2	100	0	138	49	0	0	50	1.00
1988157--1988183	4	6.8	4	100	0	54	22	0	25	51	1.48
1996045--1996252	48	4.3	48	82	6	217	33	16	22	27	1.96
1996024--1996252	96	2.4	96	84	7	281	31	18	22	27	1.97
1996280--1996404	46	2.6	48	92	2	209	34	16	20	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1996322--1996863	113	4.8	113	93	0	879	32	17	22	27	1.97
1996790--1996909	48	2.5	48	93	0	204	39	17	17	25	1.91
1997306--1997353	20	2.2	20	85	10	60	4	18	0	77	0.93
1997344--1997379	12	2.7	14	83	16	58	13	19	0	66	1.24
1997318--1997381	34	1.9	32	84	6	83	10	20	0	68	1.19
2000898--2000958	25	2.3	27	83	8	72	70	1	6	21	1.19
2018823--2018862	21	1.9	21	89	0	62	25	40	25	10	1.86
2022353--2022386	4	8.8	4	87	6	52	73	2	0	23	0.97
2022747--2022779	2	16.5	2	100	0	66	48	0	0	51	1.00
2030095--2030155	19	3.2	19	73	17	54	75	1	11	11	1.12
2030094--2030160	29	2.2	30	82	15	77	76	1	10	11	1.10
2030094--2030163	8	7.9	8	75	17	50	77	1	10	11	1.07
2032080--2032126	24	2.0	23	88	12	69	55	0	6	38	1.26
2037344--2037392	25	2.0	25	83	0	62	28	6	4	61	1.38
2039275--2039331	22	2.5	22	85	8	69	36	5	5	52	1.47
2042634--2042659	2	13.0	2	100	0	52	50	0	0	50	1.00
2043684--2043714	6	5.2	6	92	0	53	54	16	0	29	1.42
2044181--2044251	36	2.0	36	85	0	97	30	22	9	36	1.87
2044393--2044623	103	2.3	101	78	11	240	33	14	12	38	1.85
2044578--2044736	66	2.4	66	91	0	264	26	18	13	40	1.88
2044582--2044706	36	3.6	36	71	16	120	24	19	14	41	1.88
2045468--2045539	13	5.6	13	65	15	51	44	0	2	52	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2045504--2045589	14	5.5	15	74	22	70	40	0	3	55	1.17
2045481--2045777	54	5.9	47	77	19	212	37	0	9	52	1.38
2045532--2045636	22	4.7	22	70	14	72	37	0	9	53	1.34
2045569--2045774	32	7.4	32	70	29	193	35	0	11	52	1.42
2045569--2046010	54	8.2	54	82	9	433	33	0	13	52	1.44
2045646--2045688	22	2.0	22	95	0	77	37	0	11	51	1.39
2045700--2045742	22	2.0	22	100	0	86	34	0	13	51	1.42
2045801--2045909	32	3.7	31	76	23	137	34	0	13	50	1.48
2045668--2046148	134	3.6	133	89	6	719	34	0	13	51	1.45
2045834--2046032	22	8.0	22	68	22	101	33	0	14	52	1.42
2045834--2046083	76	3.2	77	88	5	405	33	0	13	52	1.44
2045933--2045983	14	3.1	17	70	18	54	27	0	15	56	1.39
2046011--2046151	22	5.1	31	69	30	138	35	0	11	52	1.43
2045802--2046150	54	6.6	54	85	9	463	34	0	12	52	1.44
2045838--2046140	76	3.9	76	85	5	288	34	0	13	52	1.43
2047884--2047918	18	1.9	18	88	11	54	20	14	34	31	1.92
2051840--2051902	22	2.9	22	81	11	85	23	25	26	23	2.00
2057599--2057657	18	3.3	18	87	0	91	20	49	18	11	1.79
2057646--2057680	15	2.2	16	90	10	54	14	34	28	22	1.93
2058964--2058989	13	2.0	13	100	0	52	46	0	15	38	1.46
2060166--2060226	12	5.1	12	72	7	52	18	13	18	50	1.77
2060156--2060228	24	3.0	24	85	0	101	19	10	17	52	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2062166--2062200	18	1.9	18	88	0	52	34	11	0	54	1.37
2064539--2064607	12	5.8	12	72	6	59	50	18	10	20	1.75
2064535--2064643	48	2.3	48	84	6	132	48	16	11	22	1.79
2064535--2064643	24	4.5	24	78	6	114	48	16	11	22	1.79
2067053--2067109	18	3.2	18	82	0	78	21	47	17	14	1.82
2069596--2069665	12	5.8	12	75	6	52	18	12	18	50	1.78
2069597--2069669	24	3.0	24	85	0	101	20	10	17	50	1.76
2071363--2071397	18	1.9	18	100	0	70	17	22	34	25	1.96
2072055--2072090	3	12.0	3	100	0	72	33	0	0	66	0.92
2073763--2073818	23	2.3	23	84	6	67	37	5	5	51	1.47
2076221--2076254	17	1.9	18	94	5	61	26	0	8	64	1.22
2076250--2076298	21	2.3	21	82	0	53	28	0	2	69	1.00
2076222--2076295	8	9.1	8	71	8	51	25	0	5	68	1.10
2076254--2076296	16	2.7	16	88	0	59	25	0	2	72	0.97
2077285--2077319	13	2.7	13	100	0	70	54	17	8	20	1.68
2078199--2078233	17	2.1	17	100	0	70	0	34	0	65	0.93
2078727--2078782	9	5.5	11	75	23	52	35	26	32	5	1.79
2078726--2078791	30	2.2	30	91	0	105	33	25	31	9	1.87
2081017--2081049	16	2.1	16	94	0	57	66	3	24	6	1.28
2085514--2085662	61	2.5	61	79	7	153	32	23	4	38	1.76
2085785--2085958	60	2.9	57	80	8	188	41	4	19	33	1.72
2087550--2087730	12	14.9	12	72	23	100	54	1	4	40	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2087568--2087730	7	23.6	7	78	18	132	54	1	3	40	1.26
2087574--2087718	26	5.2	27	79	11	143	55	1	4	39	1.28
2087589--2087731	2	73.0	2	74	21	117	53	1	4	41	1.29
2087550--2087731	26	7.4	25	75	18	120	53	1	4	40	1.28
2087721--2087967	133	1.9	132	82	9	317	35	12	16	35	1.87
2089852--2090215	178	2.0	178	97	0	692	30	17	23	28	1.97
2092058--2092108	18	2.9	18	97	2	95	17	43	23	15	1.88
2092111--2092211	29	3.5	29	97	0	184	19	9	24	45	1.81
2098791--2098958	29	5.8	29	95	1	282	20	8	23	46	1.79
2098791--2098958	59	2.9	59	94	0	284	20	8	23	46	1.79

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