genome.fa.s2705.2.7.7.80.10.50.1000.1.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: VEPZ01002705.1 Hibiscus syriacus cultivar Beakdansim tig00005582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  469953

Tables:   1   2   3   

This is table  1  of  3  ( 251 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)
975--1019	21	2.1	21	87	0	63	31	28	24	15	1.96
1682--1850	30	5.5	31	95	4	308	18	20	22	39	1.93
5458--5502	21	2.1	21	87	0	63	31	28	24	15	1.96
5528--5572	22	2.0	22	82	4	54	31	31	26	11	1.91
6168--6352	31	6.0	31	97	1	336	19	19	22	38	1.93
6931--6962	4	8.0	4	100	0	64	0	25	0	75	0.81
12339--12376	19	2.0	19	85	10	51	42	5	15	36	1.70
15260--15294	18	1.9	18	88	0	52	54	0	17	28	1.43
16491--16550	12	5.0	12	70	22	54	28	11	20	40	1.87
16489--16604	48	2.4	47	88	5	162	25	14	18	41	1.89
16489--16604	24	4.8	24	83	6	146	25	14	18	41	1.89
16541--16614	24	3.1	24	84	3	87	22	14	18	43	1.87
18660--18699	18	2.2	18	95	0	71	20	50	20	10	1.76
19936--19980	19	2.4	19	96	0	81	46	6	15	31	1.72
21263--21378	24	4.8	24	83	6	137	25	15	18	41	1.89
22922--22977	20	2.8	20	97	0	103	32	14	14	39	1.86
34399--34484	29	2.9	30	79	3	86	52	6	4	36	1.49
34408--34501	29	3.2	27	76	10	71	46	9	5	38	1.59
34762--34843	17	5.0	16	72	10	76	50	1	1	47	1.16
34772--34858	22	3.8	22	71	14	68	51	0	1	47	1.08
34954--35010	26	2.2	24	77	17	60	52	8	17	21	1.71
35034--35113	42	1.9	42	87	5	117	46	13	10	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44880--44949	20	3.3	21	70	16	63	44	4	2	48	1.37
50476--50635	65	2.5	63	85	8	207	31	23	17	26	1.97
56423--56502	24	3.5	24	71	20	73	23	23	21	31	1.98
59181--59390	65	3.3	63	76	12	185	32	23	17	26	1.96
59231--59390	65	2.5	63	85	8	198	31	23	17	26	1.97
59368--59410	19	2.4	19	84	7	54	23	27	20	27	1.99
59231--59410	64	2.8	64	79	15	183	30	24	17	27	1.97
68581--68618	20	1.9	20	88	0	58	47	0	5	47	1.24
68663--68695	2	16.5	2	100	0	66	48	0	0	51	1.00
72367--72399	17	2.1	17	88	11	52	33	0	3	63	1.10
75140--75201	27	2.2	28	80	8	74	16	14	17	51	1.76
104824--104877	21	2.5	22	77	17	69	55	5	0	38	1.23
104965--105330	183	2.0	183	100	0	732	40	11	14	33	1.82
105616--105667	21	2.5	21	78	3	61	38	17	23	21	1.93
105656--105749	20	4.7	20	80	7	91	31	25	19	23	1.98
106303--106366	19	3.4	19	95	0	110	50	25	15	9	1.74
106376--106463	33	2.6	33	96	1	158	11	27	22	38	1.88
106431--106488	20	2.9	20	80	10	64	13	24	18	43	1.87
108164--108346	91	2.0	90	86	10	257	22	12	17	47	1.80
108591--108766	41	4.2	42	79	5	180	22	36	19	21	1.95
108700--108766	21	3.2	21	66	6	55	23	35	20	19	1.95
108565--108736	82	2.1	82	95	4	312	20	37	18	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
110106--110142	14	2.6	14	91	0	65	29	0	24	45	1.53
110262--110318	14	3.7	14	75	20	60	43	22	24	8	1.81
110244--110333	33	2.7	33	94	0	153	43	21	22	13	1.87
110244--110304	19	3.5	19	74	21	69	44	21	22	11	1.84
110400--110458	19	3.4	19	73	22	74	13	22	18	45	1.84
110333--110458	33	3.8	33	83	5	175	16	21	18	43	1.88
112486--112510	12	2.1	12	100	0	50	0	28	0	72	0.86
112686--112755	24	2.9	24	80	0	77	38	17	15	28	1.90
113509--113560	21	2.5	21	87	3	70	38	17	23	21	1.93
113846--113892	19	2.4	20	89	7	78	34	25	23	17	1.96
113846--113900	19	2.8	19	83	10	67	38	21	21	18	1.94
113919--113955	18	2.0	19	94	5	67	13	21	16	48	1.80
114083--114119	14	2.6	14	91	0	56	45	21	0	32	1.52
115508--115588	42	2.0	42	87	7	121	22	14	40	22	1.90
115944--116008	20	3.3	20	80	6	71	38	21	23	16	1.93
115997--116086	14	5.9	14	76	19	90	47	23	17	11	1.79
115981--116091	32	3.4	32	96	1	195	46	21	18	12	1.82
116121--116175	14	3.7	14	76	19	58	10	16	25	47	1.79
116103--116191	32	2.8	32	93	3	144	12	17	22	47	1.81
116176--116229	19	2.8	19	88	2	72	16	22	24	37	1.94
116701--116745	18	2.5	18	88	0	72	13	15	44	26	1.83
118047--118090	20	2.2	20	87	0	61	38	25	18	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
118343--118390	22	2.3	21	80	13	55	22	14	41	20	1.89
118350--118392	22	2.0	22	90	4	70	18	16	44	20	1.87
118576--118614	20	2.0	20	100	0	78	30	20	28	20	1.98
118633--118683	20	2.5	20	96	0	93	25	19	23	31	1.98
118561--118671	57	1.9	58	85	1	152	25	16	24	34	1.95
119140--119473	167	2.0	167	98	1	652	38	10	14	35	1.82
121637--121701	7	9.3	7	100	0	130	13	29	0	56	1.38
123867--123983	58	2.0	57	95	4	209	46	10	5	38	1.60
124220--124271	25	2.1	25	100	0	104	32	7	0	59	1.26
125669--125701	2	16.5	2	100	0	66	51	0	0	48	1.00
126297--126328	15	2.1	16	94	5	57	31	6	3	59	1.38
128388--128434	3	15.7	3	81	0	58	29	27	38	4	1.76
138545--138647	46	2.4	42	79	10	118	25	24	25	25	2.00
138545--138646	23	4.7	22	77	15	88	25	24	25	24	2.00
138783--138815	15	2.2	15	100	0	66	39	9	6	45	1.61
140837--140888	21	2.5	21	90	0	86	26	9	30	32	1.89
140879--140928	20	2.5	20	100	0	100	10	24	24	42	1.85
140879--140952	20	3.7	20	89	5	78	13	21	25	39	1.90
140920--141014	21	4.6	19	71	14	73	21	18	23	36	1.95
140902--141014	41	2.7	41	85	10	149	19	19	22	38	1.93
142076--142111	13	2.8	13	100	0	72	33	22	13	30	1.93
146224--146258	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)
146829--146877	21	2.3	21	89	6	73	44	34	0	20	1.52
153468--153540	31	2.4	31	85	0	101	38	12	9	39	1.76
159137--159241	31	3.4	30	79	7	104	35	3	13	47	1.61
159163--159241	32	2.5	32	83	4	99	32	3	15	48	1.63
169094--169137	22	2.0	22	82	8	54	9	22	4	63	1.42
179638--179689	20	2.6	20	100	0	104	23	19	23	34	1.96
180644--180682	21	1.9	21	89	5	62	48	17	15	17	1.81
182481--182587	3	35.0	3	80	7	81	40	0	3	56	1.17
182476--182520	15	3.0	15	86	0	63	42	0	4	53	1.21
184128--184172	22	2.0	24	86	8	67	42	0	0	57	0.98
184117--184174	22	2.5	22	78	15	64	46	0	0	53	1.00
184035--184269	112	2.1	112	78	8	246	40	8	8	43	1.65
184742--184780	17	2.2	18	86	13	55	25	0	2	71	0.98
189121--189226	2	53.0	2	100	0	212	50	0	0	50	1.00
191831--192172	92	3.7	92	96	0	605	27	14	23	33	1.94
194701--194754	23	2.4	23	81	3	65	35	14	16	33	1.90
195431--195918	76	6.4	76	96	0	904	21	21	21	36	1.96
195431--195918	153	3.2	152	97	0	904	21	21	21	36	1.96
195431--195918	229	2.1	229	97	0	922	21	21	21	36	1.96
196050--196159	3	36.3	3	82	8	116	40	0	2	57	1.13
196050--196159	34	3.2	34	87	3	132	40	0	2	57	1.13
196052--196156	37	2.8	36	84	7	129	40	0	2	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
197694--197738	22	2.0	24	86	8	67	42	0	0	57	0.98
197683--197740	22	2.5	22	78	15	64	46	0	0	53	1.00
197601--197835	112	2.1	112	78	7	244	40	8	8	43	1.65
198796--198846	28	1.9	27	88	11	79	50	0	0	49	1.00
204204--204249	17	2.7	18	80	10	60	41	0	4	54	1.20
218302--218356	21	2.6	22	72	18	62	20	36	23	20	1.95
218476--218508	17	2.0	16	94	5	57	60	21	6	12	1.53
220919--220946	2	14.0	2	100	0	56	50	0	0	50	1.00
222312--222387	30	2.5	31	82	2	91	52	14	11	21	1.73
223299--223373	24	3.0	25	75	14	82	52	17	2	28	1.58

Tables:   1   2   3