genome.fa.s8015.2.7.7.80.10.50.1000.1.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: VEPZ01008015.1 Hibiscus syriacus cultivar Beakdansim tig00110481_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  961110

Tables:   1   2   3   4   

This is table  1  of  4  ( 458 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)
4521--4553	2	16.5	2	93	0	57	48	0	3	48	1.17
13255--13286	13	2.4	14	89	10	57	62	0	0	37	0.95
18756--18806	24	2.1	25	85	3	68	60	17	7	13	1.56
18913--18956	23	1.9	23	81	9	54	43	2	11	43	1.53
20356--20422	35	2.0	33	82	11	82	34	4	13	47	1.63
20388--20447	29	2.1	29	83	0	75	38	6	11	43	1.68
20877--21000	63	2.0	63	87	3	178	52	4	20	23	1.63
22502--22580	23	3.4	23	82	0	104	8	17	21	51	1.72
27476--27660	43	4.4	43	80	4	162	36	15	17	30	1.90
34208--34238	15	2.1	15	93	0	53	54	0	0	45	0.99
36502--36545	21	2.1	21	86	0	61	29	27	27	15	1.96
36572--36616	22	2.0	22	86	4	63	31	33	26	8	1.87
37309--37430	31	3.9	31	79	11	124	30	20	18	31	1.96
37430--37491	30	2.1	30	93	0	106	24	19	24	32	1.98
41730--41770	21	2.0	21	85	0	55	31	29	21	17	1.96
41798--41842	22	2.0	22	86	4	63	31	33	26	8	1.87
43077--43121	21	2.1	21	87	0	63	31	28	24	15	1.96
44786--44836	25	2.0	26	96	3	95	19	23	23	33	1.97
44942--44986	23	2.0	23	86	0	63	20	26	26	26	1.99
45819--45943	31	4.0	30	80	13	137	29	20	20	30	1.97
45930--46001	30	2.4	30	92	0	117	23	20	25	30	1.99
50549--50625	38	2.0	39	94	2	138	44	6	18	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53930--54081	41	3.7	41	91	0	232	21	21	25	30	1.98
54081--54115	5	6.6	5	96	3	52	25	54	20	0	1.45
55841--55892	20	2.7	18	80	16	59	75	5	5	13	1.18
55847--55894	19	2.4	21	86	6	64	75	6	6	12	1.19
55847--55893	20	2.3	21	85	3	60	76	6	6	10	1.15
55903--55961	27	2.3	25	80	11	66	35	5	0	59	1.20
56432--56486	10	5.5	10	77	14	60	76	7	5	10	1.15
56429--56486	20	2.9	20	87	10	91	75	6	5	12	1.16
56432--56494	19	3.2	19	86	8	83	74	7	4	12	1.19
56506--56543	2	19.0	2	100	0	76	50	0	0	50	1.00
58606--58636	7	4.6	7	92	8	55	83	0	0	16	0.64
58610--58636	13	2.1	13	100	0	54	85	0	0	14	0.61
61457--61504	2	24.0	2	100	0	96	0	50	0	50	1.00
62880--62953	30	2.4	30	80	8	78	43	8	8	40	1.64
69218--69290	6	12.2	6	91	0	119	46	15	2	35	1.60
69218--69290	30	2.4	30	97	0	137	46	15	2	35	1.60
69556--69600	2	22.5	2	100	0	90	48	0	0	51	1.00
74216--74245	15	1.9	16	93	6	53	16	6	10	66	1.41
75922--75956	2	17.5	2	100	0	70	51	0	0	48	1.00
76940--77003	20	3.2	20	97	0	119	35	3	9	51	1.50
82203--82385	93	2.0	93	81	6	219	29	20	16	33	1.95
85086--85168	29	2.8	29	92	1	139	43	9	14	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89733--89814	29	2.9	28	89	5	128	43	9	14	31	1.78
91460--91596	71	1.9	72	89	2	215	48	5	12	32	1.65
92332--92398	15	4.3	15	73	23	59	46	2	0	50	1.16
92380--92423	23	2.0	22	81	4	52	50	0	0	50	1.00
93080--93145	31	2.1	31	83	8	80	31	6	9	53	1.57
93307--93392	25	3.3	28	81	12	103	54	0	3	41	1.17
93323--93402	25	3.3	23	81	10	72	55	0	5	40	1.22
100657--101166	121	4.2	123	89	4	768	37	13	18	30	1.89
104325--104369	23	2.0	23	81	0	54	33	4	8	53	1.52
105521--105559	19	2.1	18	85	4	51	35	2	10	51	1.50
114702--114736	17	1.9	18	88	11	54	45	0	2	51	1.16
123492--123551	20	2.8	20	82	10	66	35	18	20	26	1.95
124125--124171	14	3.4	14	91	5	69	42	0	25	31	1.55
130435--130515	38	2.2	37	88	2	117	54	4	1	39	1.30
131343--131404	2	32.0	2	93	6	110	50	0	0	50	1.00
134930--135023	5	18.8	5	98	0	134	53	0	6	40	1.27
135096--135136	16	2.7	15	82	17	57	41	0	0	58	0.98
137626--137692	16	4.2	16	70	19	50	61	0	0	38	0.96
137620--137692	35	2.2	34	83	13	91	61	0	0	38	0.96
137620--137681	16	3.8	16	78	14	72	61	0	0	38	0.96
137680--137737	25	2.4	23	78	10	71	51	0	1	46	1.11
140451--140538	23	3.7	23	72	19	81	18	27	26	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
141089--141132	21	2.0	22	91	4	72	20	22	29	27	1.99
141768--141809	22	2.0	23	86	13	63	47	0	0	52	1.00
141770--141821	27	2.0	27	85	14	74	46	0	0	53	1.00
141885--141927	14	2.9	14	77	12	50	34	2	2	60	1.22
143066--143161	45	2.1	45	92	0	165	17	14	10	57	1.65
172365--172711	172	2.0	174	98	1	671	31	17	16	33	1.93
174581--174629	23	2.0	23	92	7	80	42	0	12	44	1.41
174608--174733	35	3.5	34	82	11	146	43	5	7	42	1.57
174901--174950	3	16.3	3	84	12	66	30	0	2	68	1.01
176482--176696	20	10.6	20	75	8	130	40	19	21	19	1.92
176586--176694	40	2.7	40	84	4	146	36	17	23	22	1.94
176683--176726	20	2.2	20	91	0	70	54	15	18	11	1.70
176802--176875	6	12.3	6	87	12	91	28	52	18	0	1.46
176803--176875	25	3.0	25	88	9	107	27	53	19	0	1.45
176802--176848	19	2.5	19	96	3	87	31	53	14	0	1.42
176803--176875	31	2.4	29	84	13	87	27	53	19	0	1.45
177538--177616	6	13.3	6	94	1	124	2	13	51	31	1.55
177688--177731	20	2.2	20	91	0	70	11	18	15	54	1.70
177718--178056	20	16.6	20	74	9	130	19	23	20	37	1.94
177720--177910	40	4.7	40	82	5	231	21	25	17	35	1.95
177718--177931	103	2.1	103	87	1	304	21	25	18	35	1.96
177728--177890	83	2.0	83	90	2	256	22	25	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
177921--177973	21	2.5	21	96	0	97	16	24	32	26	1.97
178006--178056	19	2.6	20	90	3	77	15	17	23	43	1.88
179256--179302	24	1.9	25	95	4	87	46	23	4	25	1.70
187760--187813	27	2.0	27	85	0	72	55	22	7	14	1.64
187845--187927	34	2.4	34	93	0	148	40	20	14	24	1.89
189194--189239	2	23.0	2	100	0	92	50	0	0	50	1.00
196431--196459	2	14.5	2	100	0	58	48	0	0	51	1.00
204806--204861	20	2.7	20	75	20	53	60	0	0	39	0.97
204831--204884	25	2.1	25	82	3	63	64	3	1	29	1.21
206488--206540	24	2.2	24	96	0	97	22	43	16	16	1.88
213182--213550	20	18.5	20	85	4	458	34	26	18	20	1.96
214224--214270	24	2.0	24	87	8	69	25	14	21	38	1.92
214445--214469	12	2.1	12	100	0	50	72	0	28	0	0.86
216775--217082	19	17.4	19	78	17	351	47	18	20	14	1.83
216775--217104	33	9.5	34	79	16	276	46	18	20	14	1.83
216803--217082	52	5.2	53	90	5	351	47	17	21	14	1.83
216842--217082	71	3.4	71	83	11	348	47	17	20	14	1.83
217111--217212	19	5.6	19	85	12	151	14	23	17	44	1.86
217319--217355	14	2.6	14	91	0	65	45	21	0	32	1.52
217350--217422	12	6.0	12	67	20	53	57	16	1	24	1.47
217336--217408	38	1.9	38	97	0	137	53	16	1	28	1.51
219281--219337	14	3.7	14	77	20	60	45	22	21	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
219262--219354	33	2.8	33	95	0	168	47	21	20	10	1.80
219225--219359	19	7.6	19	76	16	128	45	23	19	11	1.82
219355--219483	19	7.3	19	75	17	125	8	17	28	45	1.77
219355--219446	33	2.8	33	93	3	150	7	18	28	45	1.76
219527--219906	93	4.1	93	99	0	753	46	18	12	22	1.83
219527--219906	185	2.0	186	99	0	753	46	18	12	22	1.83
221613--221702	14	5.7	14	74	23	81	41	23	26	8	1.84
221605--221719	33	3.5	33	92	0	203	44	20	25	9	1.82
221612--221724	19	6.8	18	72	23	88	42	22	25	9	1.84
221736--221790	14	3.6	14	73	21	56	9	27	23	40	1.85

Tables:   1   2   3   4