genome.fa.s9067.2.7.7.80.10.50.1000.1.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: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2329927

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

This is table  1  of  10  ( 1150 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)
5475--5537	31	2.0	33	87	6	94	34	4	17	42	1.70
5556--5700	76	1.9	76	80	5	166	28	8	13	48	1.71
26721--26751	16	1.9	16	93	0	53	32	0	0	67	0.91
47517--47579	30	2.1	30	82	5	74	31	20	20	26	1.98
49420--49520	18	5.7	18	73	16	77	45	0	0	52	1.14
49416--49507	23	3.9	24	74	14	68	47	1	1	50	1.15
49443--49520	23	3.5	23	77	10	74	43	1	1	53	1.16
49510--49556	22	2.1	23	88	4	69	53	0	2	44	1.12
49518--49561	22	2.0	22	82	8	54	54	0	2	43	1.12
51670--51730	2	30.5	2	85	6	79	42	1	1	54	1.20
52360--52406	14	3.7	14	71	26	50	51	4	0	44	1.21
52358--52407	23	2.1	24	96	3	93	48	4	0	48	1.20
52446--52472	13	2.1	13	100	0	54	44	0	0	55	0.99
52660--52708	16	3.1	16	93	0	80	40	14	24	20	1.89
66680--66775	48	2.0	49	91	2	158	34	10	9	45	1.71
67043--67138	48	2.0	49	91	2	158	34	10	9	45	1.71
66658--67383	363	2.0	363	100	0	1452	35	10	7	46	1.66
70371--70409	20	1.9	21	89	5	62	43	5	0	51	1.24
72118--72144	6	4.5	6	100	0	54	51	14	18	14	1.76
72540--72585	24	1.9	24	95	0	83	6	13	26	54	1.62
72548--72578	14	2.2	14	94	0	53	6	12	25	54	1.62
72547--72598	24	2.2	24	89	0	77	11	11	19	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
73672--73722	16	3.3	16	84	10	63	11	9	17	60	1.57
75171--75233	25	2.4	25	85	12	83	34	1	3	60	1.22
78654--78724	29	2.4	29	85	0	88	19	39	28	12	1.88
78956--79041	29	3.0	29	84	0	109	13	29	39	17	1.88
87663--87694	16	2.0	16	93	0	55	40	25	0	34	1.56
91790--91819	16	1.9	16	93	6	53	43	20	13	23	1.86
92546--92586	22	1.9	22	85	5	57	56	2	4	36	1.34
93139--93168	2	15.0	2	100	0	60	50	0	0	50	1.00
93180--93228	22	2.2	23	82	10	57	38	18	16	26	1.91
97122--97183	25	2.5	25	97	0	115	45	0	12	41	1.42
97527--98359	416	2.0	412	94	3	1458	24	14	15	46	1.82
109760--109884	26	4.7	26	68	20	71	72	0	8	18	1.13
109819--109946	49	2.8	43	77	14	107	73	0	4	21	1.06
109838--109909	24	3.0	25	70	24	64	77	1	2	18	0.96
109838--109948	49	2.3	47	80	11	127	75	0	2	20	0.98
109895--110015	37	3.1	37	75	16	111	66	1	2	28	1.14
109881--109971	34	2.8	34	76	15	95	70	2	2	25	1.10
109913--110031	42	3.1	36	72	22	107	67	2	1	28	1.13
111165--111255	38	2.4	36	80	8	110	28	6	20	43	1.77
111241--111335	36	2.6	36	85	3	111	35	14	21	28	1.93
111371--111443	37	2.0	37	91	0	119	38	12	20	28	1.89
111356--111590	102	2.3	102	78	4	249	38	11	17	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111738--112057	106	3.0	106	88	2	441	23	19	23	33	1.97
112635--112739	32	3.3	32	82	7	124	37	19	14	29	1.91
112655--112746	31	2.9	32	86	4	132	38	20	11	29	1.89
113801--113858	14	4.2	13	77	14	55	3	13	3	79	0.99
113801--113878	9	9.0	8	70	24	52	2	15	3	78	1.01
116917--117091	4	43.8	4	69	20	57	74	1	5	18	1.07
116925--117077	26	5.6	26	68	26	68	74	1	6	17	1.10
116914--117061	31	4.7	31	76	10	108	74	0	7	17	1.09
117003--117096	20	4.6	21	70	17	72	78	1	3	17	0.93
116917--117092	20	9.5	17	67	23	65	75	1	5	18	1.07
116974--117096	37	3.2	37	70	16	90	76	1	4	17	1.04
117043--117119	13	5.6	13	70	17	50	72	1	0	25	0.92
116974--117117	50	2.8	50	77	15	127	74	1	4	20	1.06
117163--117220	23	2.7	21	81	5	62	68	3	0	27	1.05
117175--117220	21	2.1	21	84	15	58	69	4	0	26	1.07
117104--117210	45	2.2	48	78	14	123	63	2	1	31	1.19
117048--117218	26	6.7	26	71	17	103	67	2	1	29	1.11
117160--117220	27	2.3	26	83	8	70	70	3	0	26	1.02
124401--124436	19	1.9	19	88	5	56	58	0	0	41	0.98
125275--125318	14	3.1	14	90	0	70	11	9	18	61	1.55
125591--125628	14	2.5	15	83	12	51	5	10	23	60	1.50
132906--132954	24	2.0	24	100	0	98	24	22	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
148909--148966	28	2.1	28	100	0	116	13	32	6	46	1.70
152339--152367	12	2.5	12	94	5	51	27	0	10	62	1.28
152286--152481	75	2.6	75	82	3	234	27	6	15	51	1.66
157728--157845	54	2.2	54	92	0	191	29	16	26	27	1.97
158038--158126	41	2.2	40	86	10	117	39	2	19	39	1.64
160565--160644	20	3.8	20	77	9	70	15	23	33	27	1.94
166338--166494	74	2.1	74	88	2	226	29	17	27	25	1.97
182682--182711	6	5.0	6	100	0	60	50	0	16	33	1.46
183354--183383	2	15.0	2	100	0	60	50	0	0	50	1.00
185000--185138	36	3.9	36	95	0	233	42	14	15	27	1.86
185356--185380	12	2.1	12	100	0	50	52	16	8	24	1.70
185531--185562	16	2.0	16	100	0	64	37	18	6	37	1.76
187194--187282	29	3.0	29	76	14	85	37	15	3	43	1.64
190457--190545	36	2.4	38	78	17	114	51	3	0	44	1.18
196000--196035	18	2.0	18	94	0	63	44	0	2	52	1.15
197114--197205	20	4.1	21	70	22	55	66	8	2	22	1.31
197166--197302	51	2.7	50	74	9	118	61	6	8	24	1.48
198526--198903	44	8.5	44	68	6	165	28	22	19	29	1.98
198747--198941	45	4.4	45	69	6	117	29	22	17	29	1.97
198393--198980	133	4.4	133	89	3	844	28	21	19	29	1.98
198786--198980	45	4.4	45	67	8	137	28	22	18	31	1.97
199657--199701	23	2.0	23	86	0	63	26	26	24	22	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
199669--199983	149	2.1	149	96	1	578	34	20	16	27	1.94
201448--201492	21	2.1	21	87	0	63	15	24	28	31	1.96
202275--203270	44	22.6	44	67	3	361	30	19	20	29	1.97
202194--203273	133	8.2	133	86	2	1396	30	19	20	29	1.97
202194--203273	396	2.7	397	89	1	1555	30	19	20	29	1.97
203573--203673	40	2.7	38	80	10	109	38	13	17	29	1.89
203614--203852	65	3.6	65	74	9	191	39	15	19	25	1.91
203811--203882	37	2.0	36	83	2	90	43	11	15	30	1.81
203925--204299	90	4.2	90	92	2	574	35	21	17	25	1.95
206283--206325	17	2.6	16	82	17	52	2	9	4	83	0.87
207529--207566	20	1.9	20	94	0	67	44	18	18	18	1.87
208989--209052	30	2.1	30	85	0	83	34	28	18	18	1.95
209732--209884	64	2.4	64	78	10	161	26	20	19	33	1.96
210876--210900	3	8.3	3	100	0	50	32	0	0	68	0.90
213773--213836	30	2.1	30	85	0	83	34	28	18	18	1.95
214516--214668	64	2.4	64	78	10	161	26	20	19	33	1.96
217663--217799	51	2.7	49	75	11	125	62	7	7	23	1.47
217863--217993	60	2.2	60	82	6	158	35	15	19	29	1.93
220225--220319	31	3.1	30	81	6	109	30	18	27	23	1.98
225967--226031	3	21.0	3	82	14	71	61	0	0	38	0.96
225967--226031	15	4.4	15	88	9	98	61	0	0	38	0.96
227881--228973	105	10.4	105	94	0	1837	23	18	25	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
236395--236433	20	1.9	21	89	5	62	10	20	2	66	1.33
240699--240754	3	18.0	3	82	17	62	64	0	0	35	0.94
240714--240754	15	2.7	15	100	0	82	68	0	0	31	0.90
242079--242111	15	2.2	15	89	10	50	78	0	0	21	0.75
251742--252390	73	8.9	73	85	4	789	41	13	12	32	1.82
254395--254480	32	2.7	32	92	1	147	37	23	15	24	1.93
259802--259826	13	1.9	13	100	0	50	40	8	24	28	1.83
262544--263113	258	2.2	247	87	7	786	41	18	11	27	1.85
276387--276440	27	1.9	27	85	14	74	53	20	0	25	1.45
291530--291561	2	16.0	2	100	0	64	50	0	0	50	1.00

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