genome.fa.s6506.2.7.7.80.10.50.1000.1.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: VEPZ01006506.1 Hibiscus syriacus cultivar Beakdansim tig00015836_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  245942

Tables:   1   2   

This is table  1  of  2  ( 128 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)
2560--2606	15	3.1	15	100	0	94	34	31	19	14	1.92
2749--2795	12	3.9	12	94	0	76	38	23	2	36	1.67
3101--3277	64	2.8	63	85	3	212	24	20	22	32	1.98
3101--3325	64	3.5	63	83	6	206	26	20	20	32	1.98
10704--10786	43	1.9	43	100	0	166	15	19	13	51	1.75
19121--19154	18	1.9	17	88	5	50	67	14	0	17	1.23
24395--24564	91	1.9	92	83	3	227	38	10	10	40	1.73
38491--38548	19	2.9	20	84	5	82	13	27	39	18	1.89
38551--38595	21	2.2	21	96	4	83	17	35	28	17	1.93
40240--40307	30	2.3	30	79	2	84	44	7	19	29	1.77
40656--40699	24	1.9	23	81	9	54	31	27	29	11	1.91
40791--40820	3	10.0	3	92	0	51	3	66	0	30	1.07
44243--44303	29	2.2	28	82	11	72	59	13	8	19	1.59
45574--45739	91	1.8	91	92	2	280	26	19	13	39	1.90
45779--45832	17	3.1	17	70	15	56	24	18	11	46	1.81
45782--45839	19	3.2	18	66	24	50	18	22	8	50	1.74
45902--46078	91	1.9	92	93	1	302	23	23	14	38	1.92
46691--46862	66	2.7	65	78	8	172	41	14	16	27	1.88
46804--47088	36	7.8	36	89	1	408	37	13	21	26	1.91
46967--47031	21	3.4	21	68	24	70	36	12	26	24	1.91
47063--47113	26	2.0	26	88	0	75	37	15	27	19	1.92
47107--47386	40	7.0	40	89	0	407	43	10	15	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47686--47805	34	3.5	34	88	0	168	35	11	20	32	1.89
47910--48043	32	4.2	32	91	1	205	29	24	15	29	1.96
47910--48043	65	2.1	64	90	1	205	29	24	15	29	1.96
49096--49228	7	18.7	7	74	20	64	3	17	3	76	1.04
49174--49227	14	3.9	14	90	9	85	0	24	1	74	0.92
49085--49228	21	7.2	20	73	19	106	3	17	2	76	1.05
49415--49519	2	52.5	2	100	0	210	50	0	0	49	1.00
50490--50590	27	3.7	27	97	0	184	50	11	19	17	1.77
50517--50698	67	2.7	67	89	7	264	48	13	21	15	1.80
50577--50707	27	4.8	27	98	0	244	48	14	21	15	1.80
50486--50698	94	2.3	94	92	3	349	48	13	21	16	1.80
53427--53590	55	3.0	55	77	9	165	23	21	11	43	1.85
55323--55382	28	2.2	28	85	8	79	58	13	8	20	1.60
58262--58346	30	2.8	29	69	13	73	41	5	17	35	1.74
64218--64242	12	2.1	12	100	0	50	16	20	8	56	1.65
67224--67262	15	2.6	15	95	0	69	30	23	0	46	1.53
67241--67376	45	3.1	45	82	2	141	23	20	5	50	1.68
67239--67414	43	4.1	43	79	5	169	24	22	4	48	1.69
68253--68304	23	2.3	23	90	6	81	32	19	15	32	1.93
73683--73722	13	3.1	14	79	13	50	62	0	0	37	0.95
73774--73820	20	2.3	21	78	10	62	63	8	2	25	1.34
75227--75327	3	34.0	3	85	2	141	63	0	1	34	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
75218--75327	21	5.3	21	90	3	161	61	0	1	36	1.06
79078--79222	80	1.8	77	81	10	177	55	4	4	35	1.41
78896--79641	375	2.0	368	96	2	1379	42	5	9	41	1.62
82667--82701	3	11.7	3	100	0	70	34	0	0	65	0.93
87921--87945	3	8.3	3	100	0	50	0	32	0	68	0.90
93034--93321	56	5.2	56	92	2	451	34	10	30	25	1.89
97961--98003	21	2.0	21	90	0	68	48	16	16	18	1.81
99985--100009	2	12.5	2	100	0	50	52	0	0	48	1.00
103038--103112	4	18.8	4	97	0	114	50	5	0	44	1.24
106123--106158	18	2.1	17	94	5	63	52	0	0	47	1.00
111430--111474	22	2.0	22	100	0	90	31	8	22	37	1.85
114798--114839	21	2.0	22	90	4	68	52	19	11	16	1.74
118413--118774	6	60.7	6	87	1	215	21	10	28	39	1.86
118888--119070	97	1.9	97	100	0	366	33	9	20	36	1.86
119086--119154	10	6.7	10	77	6	66	0	18	49	31	1.48
119090--119123	6	5.7	6	92	0	50	0	20	50	29	1.49
119163--119217	27	2.0	27	100	0	110	18	30	10	40	1.85
119440--119464	2	12.5	2	100	0	50	52	0	0	48	1.00
120206--120270	17	3.6	17	75	15	67	26	30	23	20	1.98
120203--120299	38	2.6	38	91	0	158	24	27	22	24	2.00
120447--120539	46	2.1	44	85	4	123	34	18	6	40	1.76
122198--122233	19	1.9	19	88	5	56	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
124402--124621	59	3.7	61	83	8	247	39	5	22	32	1.77
124939--124997	29	2.0	29	86	0	82	44	15	20	20	1.87
129881--129916	16	2.2	16	95	0	63	38	5	22	33	1.77
130188--130288	50	2.0	50	84	5	132	38	6	7	46	1.60
130208--130304	50	2.0	49	85	2	131	37	8	7	47	1.61
130345--130408	31	2.1	31	87	0	92	31	6	4	57	1.44
130957--131056	53	1.9	52	89	6	157	54	11	5	30	1.57
130957--131071	53	2.2	53	85	3	151	53	9	6	30	1.57
131452--131538	33	2.7	31	82	13	106	51	0	1	47	1.08
131464--131540	30	2.6	30	82	15	97	49	0	1	49	1.09
131581--131663	29	2.9	29	72	0	76	36	4	3	55	1.39
131647--131687	14	3.1	14	82	6	50	34	0	0	65	0.93
131495--131837	172	2.0	172	95	0	623	47	2	3	46	1.32
133924--133966	2	21.5	2	100	0	86	48	0	0	51	1.00
137959--138072	59	1.9	59	83	3	149	37	15	14	31	1.89
142495--142523	15	1.9	15	100	0	58	34	27	20	17	1.95
153441--153781	131	2.6	130	84	5	440	26	15	14	43	1.85
154062--154093	7	4.9	7	88	11	50	28	0	0	71	0.86
156603--156708	42	2.5	42	81	0	122	22	15	25	36	1.93
156452--157433	48	20.8	48	76	8	768	24	16	23	35	1.95
159265--159386	42	2.9	42	81	0	127	22	15	24	36	1.93
159154--159799	96	6.8	96	78	8	510	23	16	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
159154--159776	144	4.4	144	76	9	476	23	15	24	36	1.94
159422--159899	144	3.3	144	83	4	466	24	16	22	36	1.94
159154--159817	48	14.0	48	75	10	398	23	15	24	36	1.94
160477--160509	16	2.1	16	94	0	57	39	27	21	12	1.88
162164--162361	66	3.0	66	92	0	315	20	29	20	29	1.97
167040--167145	23	4.6	22	72	8	86	62	6	3	27	1.37
167039--167147	46	2.4	47	87	3	168	61	6	4	27	1.40
167131--167188	23	2.5	23	91	0	89	60	3	10	25	1.45
184241--184309	31	2.2	31	97	0	129	60	14	15	8	1.57
184290--184431	69	2.1	69	98	0	275	51	19	11	16	1.76
190292--190334	15	2.9	15	75	0	50	48	18	30	2	1.60
191600--191624	2	12.5	2	100	0	50	48	0	0	52	1.00
199849--199953	31	3.6	30	83	6	126	40	8	9	40	1.68
200042--200118	29	2.6	29	80	13	95	37	11	11	38	1.78
200037--200177	31	4.6	31	73	12	96	42	8	9	39	1.67
201876--202006	60	2.2	61	83	4	167	29	15	15	39	1.88
202215--202498	90	3.1	90	88	0	424	36	18	15	29	1.92
204087--204127	21	2.0	22	90	9	68	46	4	4	43	1.46
204512--204547	17	2.1	17	90	10	56	38	8	0	52	1.32
208114--208138	9	2.8	9	100	0	50	16	24	60	0	1.36
208401--208426	2	13.0	2	100	0	52	50	0	0	50	1.00
211300--211333	14	2.4	14	95	0	59	23	2	29	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
215313--215364	16	3.2	17	72	22	58	42	0	21	36	1.53
217550--217648	5	19.8	5	97	0	162	24	0	15	60	1.35
218361--218408	2	24.0	2	100	0	96	50	0	0	50	1.00
221753--221813	2	30.5	2	100	0	122	50	0	0	49	1.00
228719--228880	59	2.8	57	88	4	245	35	11	25	27	1.90
230965--231374	202	2.0	202	89	0	622	33	21	13	30	1.93
232732--232838	23	4.7	23	95	0	160	24	27	29	18	1.98
233277--233321	15	3.0	15	83	0	54	37	20	0	42	1.52
234039--234134	38	2.5	38	84	0	120	23	27	22	26	2.00
234283--234395	46	2.5	46	91	4	178	33	17	6	42	1.74

Tables:   1   2