genome.fa.s7849.2.7.7.80.10.50.1000.1.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: VEPZ01007849.1 Hibiscus syriacus cultivar Beakdansim tig00110206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3141433

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

This is table  1  of  12  ( 1357 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)
6479--6519	21	2.1	19	86	9	55	19	4	2	73	1.13
14281--14348	32	2.1	33	91	2	111	38	22	27	11	1.89
23440--23464	2	12.5	2	100	0	50	52	0	0	48	1.00
27066--27215	73	2.1	73	94	0	264	31	12	16	40	1.84
31022--31081	2	30.0	2	100	0	120	50	0	0	50	1.00
40436--40497	18	3.2	20	78	19	62	61	0	1	37	1.06
40493--40602	52	2.1	53	96	1	204	54	1	0	43	1.10
40493--40584	28	3.4	28	80	13	129	55	2	0	42	1.12
40518--40602	24	3.4	24	83	12	116	52	1	0	45	1.08
40599--40644	12	3.8	12	75	18	51	67	2	0	30	1.03
44627--44652	11	2.4	11	100	0	52	46	0	7	46	1.31
47886--47926	4	10.8	4	89	10	68	51	21	0	26	1.48
49046--49096	23	2.2	23	89	0	75	29	21	29	19	1.98
53789--53852	23	2.8	23	85	0	92	26	25	28	20	1.99
57937--58030	2	47.0	2	100	0	188	50	0	0	50	1.00
59579--59618	21	1.9	21	94	0	71	55	0	12	32	1.38
61536--61568	2	17.0	2	93	6	59	48	0	0	51	1.00
62012--62038	2	13.5	2	100	0	54	51	0	0	48	1.00
71742--71936	101	1.9	101	95	2	356	33	13	20	32	1.92
73071--73104	16	2.1	16	100	0	68	11	26	38	23	1.89
76836--77095	32	7.5	33	70	21	115	46	2	7	43	1.45
76898--77096	73	2.7	71	73	14	172	47	2	6	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76928--77102	38	4.7	38	71	20	122	48	2	6	43	1.41
76919--77131	75	2.9	74	79	9	220	47	2	6	43	1.44
82487--82588	39	2.6	40	76	6	102	31	16	26	25	1.97
84806--85200	195	2.0	195	94	5	701	34	22	12	29	1.92
90777--90810	2	17.5	2	93	6	61	52	0	0	47	1.00
90776--90811	17	2.1	17	100	0	72	55	0	0	44	0.99
90779--90808	15	2.0	15	100	0	60	53	0	0	46	1.00
104864--104903	21	1.9	21	94	0	71	72	5	0	22	1.04
105157--105248	29	3.2	29	61	27	68	23	10	19	45	1.82
105146--105261	58	2.0	58	100	0	232	22	12	20	44	1.84
105162--105289	58	2.2	57	83	9	152	24	15	21	39	1.92
108907--108953	21	2.2	21	77	7	51	31	0	4	63	1.13
115132--115210	18	4.6	18	87	9	121	37	0	32	29	1.58
115734--116273	264	2.1	255	86	8	743	36	28	11	22	1.89
115956--116042	38	2.3	38	94	2	149	37	39	11	11	1.78
118103--118141	19	2.0	20	90	5	62	33	2	0	64	1.08
121249--121294	20	2.3	19	89	10	74	54	10	17	17	1.70
121415--121461	20	2.4	19	79	10	58	55	8	17	19	1.67
121606--121658	24	2.2	24	86	6	72	54	11	7	26	1.62
123126--123189	23	2.8	23	87	0	92	35	6	20	37	1.78
123126--123198	23	3.2	23	82	7	85	34	5	20	39	1.76
135307--135341	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
135456--135503	21	2.3	20	79	10	51	43	0	2	54	1.12
135466--135500	14	2.4	14	90	4	52	40	0	0	60	0.97
137409--137480	29	2.5	29	95	0	126	31	11	36	20	1.88
137593--137651	2	30.5	2	79	6	68	49	0	0	50	1.00
160944--160983	21	1.9	21	84	0	53	2	32	0	65	1.06
162724--162750	14	1.9	14	100	0	54	29	7	11	51	1.64
171841--171928	46	1.9	46	88	0	131	37	11	7	43	1.70
174648--174703	20	2.8	20	73	15	53	42	1	7	48	1.41
176281--176312	2	16.0	2	93	0	55	0	46	0	53	1.00
177897--178020	21	5.6	21	69	17	72	40	28	19	12	1.87
177897--178106	69	3.1	69	85	6	288	39	30	18	11	1.86
178004--178090	15	5.6	15	74	8	84	42	33	13	10	1.79
178012--178058	21	2.2	21	85	7	60	42	34	17	6	1.74
186541--186573	2	17.0	2	93	6	59	48	0	0	51	1.00
186868--187034	66	2.5	66	81	4	167	24	23	20	31	1.98
196327--196357	2	15.5	2	100	0	62	51	0	0	48	1.00
198728--198762	13	2.6	14	90	4	54	5	8	22	62	1.45
198683--198775	23	4.2	23	72	14	79	10	7	21	60	1.54
199302--199342	21	2.0	21	95	0	73	29	26	19	24	1.98
199329--199472	76	1.9	76	94	0	252	25	22	19	32	1.97
199435--199532	21	4.6	21	77	14	92	20	21	25	32	1.97
208253--208291	17	2.3	17	86	8	53	58	2	0	38	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
214020--214432	202	2.0	202	90	3	654	38	17	13	30	1.89
221781--221810	13	2.3	13	94	0	51	16	0	26	56	1.40
235333--235370	14	2.7	15	84	12	53	68	2	5	23	1.23
235761--235862	34	2.9	36	88	11	165	27	14	14	43	1.85
236410--237430	105	9.9	104	90	4	1479	22	18	26	33	1.96
236410--237430	205	5.0	206	91	3	1521	22	18	26	33	1.96
236410--237430	305	3.3	309	92	3	1623	22	18	26	33	1.96
238024--238094	22	3.2	22	95	0	124	28	14	23	33	1.94
238720--238807	8	11.1	7	71	19	50	0	13	7	78	0.96
241930--241959	2	15.0	2	100	0	60	50	0	0	50	1.00
242459--242495	14	2.6	15	83	12	51	67	2	5	24	1.25
242886--242987	34	2.9	36	88	11	165	27	14	14	43	1.85
243813--243891	2	39.5	2	100	0	158	50	0	0	49	1.00
244322--244371	9	5.0	9	78	21	55	30	0	0	70	0.88
244311--244435	32	3.9	32	88	6	189	39	0	0	60	0.97
244299--244447	11	13.4	12	68	18	72	39	0	0	60	0.97
253582--253620	17	2.4	17	95	4	71	51	5	0	43	1.24
253735--253760	9	2.9	9	100	0	52	23	7	23	46	1.78
255137--255184	21	2.3	21	92	0	78	37	4	12	45	1.61
255144--255185	21	2.0	21	100	0	84	38	4	14	42	1.66
261745--261845	33	3.3	31	86	10	136	14	9	33	41	1.79
261751--261845	28	3.3	27	81	17	118	15	9	32	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
262403--262445	18	2.4	18	96	0	77	27	32	4	34	1.78
265471--265517	24	2.0	24	83	8	60	57	12	2	27	1.47
266913--266981	28	2.5	26	81	11	66	53	10	7	28	1.61
269827--270028	82	2.4	83	78	4	212	36	9	16	37	1.81
270236--270388	82	1.9	82	80	5	184	39	11	18	30	1.86
295224--295439	108	2.0	108	98	1	416	30	20	3	45	1.68
297423--297567	31	4.7	31	92	0	236	35	20	21	22	1.96
298417--298461	21	2.1	21	87	0	63	15	24	28	31	1.96
308571--308618	23	2.1	23	92	0	78	20	27	29	22	1.99
317427--317476	24	2.1	24	85	7	66	66	0	2	32	1.03
325918--325968	23	2.2	23	82	0	57	25	27	35	11	1.91
326045--326119	23	3.4	23	83	5	84	17	29	28	25	1.97
326087--326140	20	2.7	20	94	0	90	12	24	37	25	1.91
326127--326168	14	3.0	14	100	0	84	7	28	42	21	1.79
326466--326554	29	3.1	29	95	0	160	19	34	30	15	1.93
330708--330768	26	2.4	26	74	17	65	42	0	6	50	1.28
331469--331520	22	2.4	21	84	6	68	61	11	5	21	1.50
334218--334431	117	1.8	119	87	5	326	42	9	7	39	1.66
334420--334451	2	16.0	2	100	0	64	50	0	0	50	1.00
334582--334616	2	18.0	2	94	5	63	51	0	0	48	1.00
334580--334630	16	3.4	15	86	7	68	49	0	0	50	1.00
335924--335961	20	1.9	20	88	0	58	21	26	10	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352224--352264	21	2.0	21	95	0	73	41	17	0	41	1.49
354615--354640	6	4.3	6	100	0	52	34	15	15	34	1.89
355774--355862	33	2.7	33	87	0	124	25	16	35	21	1.94
357742--357776	3	11.0	3	88	11	52	37	0	0	62	0.95
361028--361121	21	4.5	21	86	7	120	42	19	18	20	1.89
362938--362984	20	2.3	21	96	3	87	8	12	10	68	1.40
363681--363739	19	2.9	19	78	16	57	77	0	15	6	0.96
363676--363750	13	5.6	13	69	17	55	78	0	16	5	0.92
363711--363745	14	2.5	14	90	0	52	82	0	8	8	0.83
365003--365245	124	2.0	125	87	2	355	33	17	26	22	1.96

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