genome.fa.s8211.2.7.7.80.10.50.1000.1.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: VEPZ01008211.1 Hibiscus syriacus cultivar Beakdansim tig00110833_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2208279

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

This is table  1  of  10  ( 1099 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)
3209--3296	44	2.0	43	86	6	124	36	21	11	30	1.89
3285--3331	18	2.7	17	80	6	58	27	25	8	38	1.85
6320--6363	5	8.8	5	100	0	88	0	40	38	20	1.53
6361--6400	6	6.7	6	100	0	80	0	17	47	35	1.48
9261--9309	5	9.8	5	88	0	62	4	38	36	20	1.72
9307--9367	6	10.2	6	96	0	104	3	16	49	31	1.62
15196--15244	5	9.8	5	88	0	62	4	38	36	20	1.72
15242--15296	6	9.2	6	95	0	92	3	16	49	30	1.63
15570--15624	22	2.5	22	75	0	56	29	9	23	38	1.85
17149--17193	22	1.9	22	82	13	54	26	2	8	62	1.37
23204--23247	21	2.1	21	86	0	61	31	34	11	22	1.90
28572--28647	24	3.2	24	81	3	64	44	21	11	22	1.84
28589--28704	24	4.8	24	84	6	137	39	19	14	25	1.90
28620--28722	48	2.1	48	82	3	118	44	17	11	26	1.83
29678--29730	26	2.0	26	85	0	70	26	20	16	35	1.94
33261--33318	25	2.5	23	80	8	64	39	3	1	55	1.27
33654--33701	23	2.0	23	92	4	78	66	4	0	29	1.10
34158--34220	28	2.1	28	85	8	81	33	25	7	33	1.85
34303--34674	185	2.0	185	93	2	631	41	4	8	45	1.53
40598--40622	11	2.3	11	100	0	50	8	8	8	76	1.18
40794--40842	6	8.5	6	93	2	75	32	51	16	0	1.45
41076--41166	19	4.4	20	76	17	105	30	28	5	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41087--41168	44	1.9	41	87	7	119	32	29	6	31	1.82
41170--41249	21	3.9	21	91	1	117	20	20	27	32	1.97
47384--47450	2	37.5	2	73	21	51	43	0	0	56	0.99
47388--47486	18	6.1	18	65	23	67	41	0	0	58	0.98
50784--50816	11	3.1	11	86	8	50	3	12	0	84	0.72
50770--50855	14	5.7	15	72	10	52	11	9	1	77	1.04
62283--62349	33	2.1	31	86	5	89	40	7	11	40	1.70
62610--62663	22	2.5	22	87	0	72	12	16	24	46	1.82
64535--64579	22	2.0	22	95	0	81	48	8	6	35	1.61
64694--64747	24	2.2	24	83	0	63	51	14	14	18	1.76
66199--66272	37	2.0	37	97	0	139	25	18	14	40	1.89
67801--67876	31	2.5	31	77	0	80	31	9	11	47	1.72
68973--69043	24	2.8	25	74	20	74	42	5	0	52	1.25
69026--69082	28	2.0	29	86	13	82	36	1	0	61	1.07
70293--70331	20	2.0	20	100	0	78	41	5	15	38	1.69
74762--74806	19	2.4	19	92	0	72	33	2	15	48	1.57
75594--75697	54	1.9	54	98	0	199	33	10	23	32	1.89
75610--75703	26	3.5	26	67	16	75	35	12	24	27	1.92
81176--81213	20	1.9	20	88	0	58	21	18	36	23	1.95
82331--82371	12	3.4	12	96	0	73	2	41	31	24	1.68
83987--84067	20	3.8	20	76	10	63	14	23	34	27	1.94
88957--89006	24	2.1	24	85	7	66	60	14	2	24	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
98962--98992	2	15.5	2	100	0	62	51	0	0	48	1.00
99241--99297	29	2.0	29	86	6	80	12	31	31	24	1.92
99356--99411	29	1.9	29	96	0	103	12	37	28	21	1.90
100374--100406	17	1.9	17	93	0	57	45	0	0	54	0.99
101287--101338	15	3.5	15	97	0	95	7	69	17	5	1.33
106836--106875	13	3.1	13	100	0	80	62	15	7	15	1.53
107922--107954	6	5.5	6	96	0	57	72	12	15	0	1.12
109395--109436	15	2.7	15	79	17	50	28	0	2	69	1.01
111506--111683	48	3.9	45	84	10	220	23	2	6	67	1.27
111577--111654	22	3.6	21	76	13	77	26	2	5	65	1.27
111506--111683	45	3.9	45	82	10	202	23	2	6	67	1.27
111506--111683	91	2.0	91	86	6	254	23	2	6	67	1.27
111523--111723	91	2.2	89	80	9	221	24	2	7	65	1.31
111717--111759	20	2.1	21	86	4	61	18	0	6	74	1.04
112358--112403	15	2.8	17	75	21	53	47	0	0	52	1.00
113299--113347	23	2.1	23	85	7	64	26	2	14	57	1.48
116999--117039	21	2.0	20	86	13	57	73	0	0	26	0.84
118805--118877	24	3.0	24	87	2	92	46	13	15	24	1.82
118837--118880	12	3.7	12	75	0	52	52	13	13	20	1.74
118835--118884	24	2.1	24	96	0	91	46	12	20	22	1.83
131638--131683	16	2.9	16	83	6	58	30	4	2	63	1.26
132705--132759	27	2.1	26	89	3	83	41	3	0	54	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
142416--142472	28	2.0	28	100	0	114	22	17	28	31	1.97
142475--142511	9	4.1	9	85	0	56	72	0	2	24	0.97
142270--142601	183	1.8	183	91	0	547	44	12	13	29	1.80
143375--143420	18	2.6	18	92	0	83	43	17	2	36	1.61
150542--150568	2	13.5	2	100	0	54	51	0	48	0	1.00
154243--154320	34	2.3	34	90	0	129	52	17	2	26	1.58
165855--165892	18	2.1	18	100	0	76	42	10	10	36	1.74
166667--166710	21	2.0	22	87	12	65	65	4	0	29	1.12
167947--167996	21	2.4	21	76	6	57	24	26	16	34	1.95
168028--168093	20	3.3	20	85	4	89	27	27	16	28	1.97
168037--168100	20	3.2	20	88	0	101	29	25	17	28	1.97
168298--168345	22	2.3	21	89	7	71	20	39	14	25	1.91
168601--168659	20	3.0	20	87	0	73	15	18	22	44	1.87
168796--168850	25	2.2	24	78	15	58	20	9	18	52	1.71
169979--170026	18	2.7	18	86	0	69	29	41	12	16	1.85
170561--170606	20	2.3	20	84	0	56	39	26	19	15	1.91
170578--170615	20	2.0	20	89	5	60	31	23	26	18	1.97
170600--170682	19	4.6	19	76	14	104	45	21	20	12	1.83
170708--170794	20	4.4	20	88	1	122	14	24	24	36	1.93
170722--170818	20	4.8	20	89	2	106	17	20	25	36	1.94
171169--171237	21	3.3	20	74	6	66	24	40	15	18	1.90
171159--171249	41	2.2	42	88	2	139	21	41	15	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
172660--172698	14	2.8	14	84	0	51	35	0	17	46	1.49
172890--172943	20	2.7	20	97	0	99	12	22	25	38	1.90
173495--173582	20	4.4	20	95	0	149	26	20	29	23	1.99
173490--173624	20	6.7	20	86	5	146	23	19	26	30	1.98
173515--173645	41	3.2	41	81	3	122	23	19	25	30	1.98
173613--173664	20	2.5	21	84	3	61	19	23	19	38	1.93
173660--173706	21	2.2	20	85	10	67	36	14	27	21	1.93
174318--174354	19	1.9	19	94	0	65	32	29	16	21	1.95
174991--175082	39	2.3	40	81	7	107	15	15	25	44	1.85
174980--175082	20	5.2	20	78	2	109	18	15	24	41	1.89
176400--176453	28	2.0	27	81	3	63	31	1	18	48	1.59
176644--176682	20	2.0	20	89	0	60	48	25	17	7	1.74
176713--176864	20	8.1	20	74	15	137	25	17	21	35	1.95
176738--176836	35	2.9	34	89	3	153	20	17	25	37	1.93
178933--178969	14	2.6	14	91	4	56	8	18	21	51	1.72
179159--179212	24	2.2	24	86	0	72	40	18	18	22	1.91
180223--180330	20	5.3	20	69	10	76	25	17	25	32	1.97
183375--183414	13	2.9	14	81	7	55	57	22	10	10	1.61
190519--190559	8	5.2	8	88	5	66	36	0	26	36	1.57
190519--190559	15	2.6	16	84	7	66	36	0	26	36	1.57
190630--191383	128	5.9	128	95	1	1216	22	24	19	33	1.97
191783--191883	34	3.0	34	85	0	139	38	1	3	55	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
192403--192454	21	2.5	21	96	0	95	21	28	32	17	1.96
194232--194306	31	2.4	33	77	11	84	60	1	0	38	1.06
194229--194308	34	2.5	31	83	8	97	61	1	0	37	1.04
199755--199785	15	2.0	16	93	6	55	51	16	0	32	1.44
206958--207018	29	2.1	30	81	6	72	50	13	8	27	1.69
212312--212344	14	2.4	14	89	0	57	45	0	0	54	0.99
217019--217064	19	2.4	19	88	0	74	28	23	23	23	2.00
222192--222249	22	2.7	21	82	15	73	44	1	1	51	1.21
222656--222684	2	15.0	2	92	7	51	51	0	0	48	1.00
224086--224194	39	2.8	39	77	10	116	44	2	15	36	1.61

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