genome.fa.s7879.2.7.7.80.10.50.1000.1.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: VEPZ01007879.1 Hibiscus syriacus cultivar Beakdansim tig00110257_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1117421

Tables:   1   2   3   4   

This is table  1  of  4  ( 467 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)
9017--9050	10	3.3	10	92	8	59	88	0	0	11	0.52
9011--9050	15	2.8	14	85	7	53	85	0	2	12	0.71
9011--9059	8	6.7	7	81	13	55	81	0	4	14	0.83
9011--9067	8	7.5	8	79	20	52	80	0	7	12	0.89
9990--10492	55	9.1	55	87	2	688	29	14	27	28	1.95
15274--15325	27	1.9	27	84	7	70	36	1	3	57	1.28
15524--15563	2	20.0	2	100	0	80	50	0	0	50	1.00
16515--16561	23	2.0	23	84	8	60	21	0	6	72	1.07
18135--18160	3	8.7	3	100	0	52	0	30	0	69	0.89
26293--26345	21	2.7	20	80	16	65	24	3	11	60	1.47
28233--28304	32	2.2	32	85	4	92	31	41	9	16	1.81
31314--31429	62	1.9	60	84	7	153	32	18	12	36	1.89
33174--33291	31	3.8	31	78	8	125	38	5	5	50	1.46
33160--33298	29	4.7	29	74	7	109	38	4	5	52	1.43
33174--33290	62	1.9	62	82	10	150	39	5	5	50	1.47
33346--33403	28	2.1	28	80	6	64	44	8	5	41	1.57
33827--33868	20	2.2	19	95	4	75	61	0	0	38	0.96
37516--37570	22	2.5	22	78	0	65	30	9	21	38	1.85
43402--43456	22	2.5	22	78	0	65	30	9	21	38	1.85
57112--57524	222	1.9	222	93	0	709	41	18	12	27	1.87
65686--65759	29	2.5	30	73	22	91	39	22	8	29	1.83
66050--66084	17	2.1	17	88	0	52	74	0	11	14	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
71442--71525	38	2.2	38	91	0	132	50	0	0	50	1.00
71475--71544	36	2.0	35	83	10	90	50	0	0	50	1.00
71592--71668	30	2.6	30	89	0	118	19	33	12	33	1.90
89331--89370	20	2.0	20	85	0	53	45	5	42	7	1.54
94391--94448	28	2.0	29	84	15	77	36	1	5	56	1.32
94408--94484	40	1.9	37	82	15	91	36	0	3	59	1.16
94833--94891	30	2.0	30	93	0	100	20	18	6	54	1.66
94834--94906	30	2.4	30	84	4	94	21	19	8	50	1.73
95035--95097	32	2.0	32	90	0	99	23	17	11	47	1.79
96906--96938	12	2.8	12	100	0	66	12	9	9	69	1.36
98054--98095	21	2.0	21	100	0	84	47	14	9	28	1.75
98647--98766	60	2.0	59	83	1	150	37	10	17	34	1.85
102257--102287	2	15.5	2	100	0	62	0	48	0	51	1.00
103638--103664	2	13.5	2	100	0	54	51	0	0	48	1.00
108364--108398	17	2.0	18	88	5	54	40	0	20	40	1.52
110320--110350	15	2.1	15	93	0	53	41	22	12	22	1.88
110194--110566	187	2.0	187	100	0	746	26	25	16	31	1.96
110507--110537	15	2.1	15	93	0	53	41	22	12	22	1.88
111370--111407	20	2.0	20	89	5	60	60	21	0	18	1.36
112837--112870	13	2.6	13	95	0	59	44	5	14	35	1.70
115103--115147	21	2.1	21	87	0	63	31	28	24	15	1.96
116336--116432	32	3.1	32	80	14	128	28	16	18	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
116423--116516	30	3.1	30	92	3	145	20	21	26	31	1.98
119909--119953	21	2.1	21	87	0	63	31	28	24	15	1.96
121144--121240	32	3.1	32	80	14	128	28	16	18	36	1.93
121231--121324	30	3.1	30	92	3	145	20	21	26	31	1.98
127903--127940	20	1.9	20	94	0	67	18	26	36	18	1.94
132311--132425	54	2.2	53	81	7	126	43	2	5	48	1.39
132511--132539	2	14.5	2	100	0	58	51	0	0	48	1.00
136795--136944	40	3.8	39	84	1	201	46	20	9	24	1.80
140831--140886	21	2.7	21	97	0	103	28	25	25	21	1.99
141365--141430	2	33.0	2	93	0	114	48	1	1	48	1.20
142444--142519	25	3.0	24	79	11	82	28	26	19	25	1.99
152195--152255	20	2.9	20	85	7	59	24	32	26	16	1.96
159614--159653	21	1.9	21	89	0	62	25	40	25	10	1.86
163848--163912	33	2.0	31	82	11	78	21	0	24	53	1.46
165803--165828	2	13.0	2	100	0	52	50	0	0	50	1.00
166829--166880	24	2.1	25	92	3	88	23	25	26	25	2.00
171165--171224	21	2.8	22	82	5	86	23	30	26	20	1.98
171695--171733	14	2.7	15	84	11	55	35	15	5	43	1.69
189586--189640	28	2.0	28	85	7	76	40	1	9	49	1.45
204349--204477	64	2.0	64	100	0	258	34	16	21	27	1.95
206047--206120	29	2.5	30	91	2	114	54	4	17	24	1.60
212577--212615	2	19.0	2	94	5	69	48	2	0	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
220628--220813	92	2.0	92	100	0	372	32	17	28	22	1.96
224428--224498	29	2.4	29	92	0	124	28	8	22	40	1.83
225196--225255	31	2.0	31	86	3	86	40	10	3	46	1.54
226063--226165	29	3.6	28	90	2	143	14	33	28	23	1.94
236143--236181	18	2.2	18	85	0	51	20	0	51	28	1.48
247668--247713	22	2.1	22	95	0	83	32	28	0	39	1.57
254521--254641	60	2.0	60	98	0	233	22	7	38	32	1.82
258135--258187	24	2.2	24	83	6	63	47	13	13	26	1.79
259086--259142	27	2.1	27	80	6	62	59	8	1	29	1.38
259178--259210	16	2.0	17	88	5	50	60	0	0	39	0.97
259340--259372	2	16.5	2	100	0	66	51	0	0	48	1.00
273154--273185	16	2.0	16	93	0	55	53	6	0	40	1.26
273180--273216	2	19.0	2	88	5	58	45	0	0	54	1.00
273178--273213	17	2.1	17	94	0	63	44	0	0	55	0.99
273505--273598	29	3.2	29	98	0	179	14	31	36	17	1.90
274240--274301	25	2.4	28	84	13	87	33	0	11	54	1.36
274246--274298	27	2.0	27	89	7	83	32	0	13	54	1.39
274419--274572	83	1.9	81	97	2	290	42	2	9	45	1.51
274863--274919	17	3.4	17	71	9	53	38	0	10	50	1.37
278069--278099	15	2.1	14	94	5	53	54	6	0	38	1.26
278074--278120	16	3.0	16	84	9	53	59	10	0	29	1.31
278161--278242	34	2.5	34	83	13	93	48	13	0	37	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
278282--278414	45	3.0	45	80	14	136	48	12	0	39	1.40
278354--278442	41	2.2	40	78	8	90	46	10	1	42	1.45
278949--279052	29	3.6	29	93	0	172	22	30	30	16	1.95
284537--284736	105	1.9	105	87	2	294	33	9	22	35	1.86
289600--289647	23	2.1	23	84	0	60	45	16	12	25	1.82
289674--289732	29	2.0	29	83	6	75	59	6	6	27	1.48
294009--294061	23	2.3	23	90	6	81	20	18	13	47	1.82
296029--296125	42	2.3	42	85	3	124	29	10	40	19	1.85
296072--296158	42	2.1	42	82	4	104	32	10	39	18	1.84
297298--297342	15	3.0	15	86	0	63	55	37	6	0	1.26
306803--306833	16	1.9	16	93	0	53	19	9	16	54	1.68
311944--312011	2	34.0	2	100	0	136	50	0	0	50	1.00
313765--313887	53	2.3	53	84	0	156	25	26	18	29	1.98
314310--314715	42	9.6	42	68	12	193	30	21	18	28	1.97
314441--314465	13	1.9	13	100	0	50	32	20	16	32	1.94
314363--314708	122	2.7	130	82	10	447	30	21	18	29	1.97
314830--314910	41	1.9	43	82	5	103	28	19	20	30	1.97
323458--323525	2	34.0	2	100	0	136	50	0	0	50	1.00
325480--325629	50	3.0	50	78	8	153	16	30	31	22	1.96
325712--325750	20	2.0	19	90	5	60	33	23	0	43	1.54
327988--328061	25	3.0	24	68	20	62	25	6	4	63	1.37
331632--331751	51	2.4	50	83	6	161	29	20	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331763--331890	51	2.5	50	82	1	148	18	31	32	17	1.95
340000--340046	13	3.6	13	79	0	58	44	14	6	34	1.71
342946--343363	208	2.0	209	99	0	829	38	21	11	28	1.88
350496--350533	15	2.5	15	84	12	51	7	15	63	13	1.51
351973--352022	24	2.1	24	100	0	100	34	4	12	50	1.58
353868--353956	45	2.0	45	93	4	153	47	16	4	31	1.67
360203--360239	19	1.9	19	94	0	65	32	29	16	21	1.95
360265--360336	20	3.6	20	74	7	74	30	23	20	25	1.99
360969--361017	20	2.5	20	89	0	71	18	18	26	36	1.94
360985--361040	20	2.8	20	88	0	76	10	14	25	50	1.75

Tables:   1   2   3   4