genome.fa.s8098.2.7.7.80.10.50.1000.1.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: VEPZ01008098.1 Hibiscus syriacus cultivar Beakdansim tig00110622_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  522112

Tables:   1   2   3   

This is table  1  of  3  ( 306 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)
7245--7269	12	2.1	12	100	0	50	76	0	24	0	0.80
13000--13063	19	3.0	22	71	19	71	12	12	15	59	1.61
14320--14348	4	7.2	4	100	0	58	27	0	0	72	0.85
19535--19660	46	2.8	45	90	3	200	39	7	23	30	1.81
29571--29638	30	2.3	30	73	14	70	48	1	4	45	1.31
39233--39335	33	3.2	33	88	2	156	44	14	7	33	1.74
39330--39371	21	2.0	21	95	0	75	50	7	14	28	1.69
47489--47575	38	2.3	38	97	0	165	40	10	5	43	1.63
65128--65174	23	2.0	24	87	8	69	23	6	29	40	1.79
68381--68408	14	2.0	14	100	0	56	50	14	7	28	1.69
72938--72977	21	1.9	21	89	0	62	45	0	12	42	1.42
75651--75720	35	2.0	35	88	0	104	38	17	11	32	1.85
76374--76415	20	2.0	21	90	4	68	40	9	7	42	1.65
76569--76664	38	2.5	38	84	0	129	22	27	22	27	1.99
81020--81089	35	2.0	35	85	0	95	37	15	11	35	1.84
82863--82904	22	1.9	22	90	0	66	47	7	4	40	1.52
90302--90477	20	8.6	20	74	10	115	27	24	19	28	1.99
90384--90477	40	2.3	40	85	0	134	27	25	22	24	2.00
91062--91129	20	3.5	20	85	2	93	11	14	23	50	1.76
92861--92910	18	2.8	18	100	0	100	32	20	6	42	1.76
93003--93078	20	3.8	20	89	0	116	18	18	23	39	1.92
93581--93622	21	2.2	19	87	12	59	21	35	19	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93607--93667	21	2.9	22	78	7	63	22	39	16	21	1.92
95253--95291	20	2.0	20	89	0	60	48	25	17	7	1.74
95285--95327	20	2.2	20	83	4	52	25	20	25	27	1.99
95300--95436	34	3.9	34	75	11	139	24	21	19	33	1.97
95334--95496	20	8.4	20	80	8	113	27	20	20	30	1.98
95294--95476	74	2.5	74	92	0	303	25	20	20	33	1.97
95354--95456	54	1.9	54	85	0	143	26	20	20	33	1.97
95334--95590	94	2.7	94	85	1	336	26	19	21	33	1.97
95508--95598	20	4.6	20	84	0	119	29	16	19	34	1.94
98168--98221	24	2.2	24	90	0	81	40	20	16	22	1.91
99050--99129	20	4.0	20	96	0	133	27	20	26	26	1.99
99098--99189	20	4.6	20	89	2	132	25	18	18	38	1.93
99058--99193	40	3.4	40	81	6	150	25	19	22	33	1.97
103464--103522	15	4.1	14	75	14	50	71	3	1	23	1.11
103482--103522	14	2.8	15	82	13	50	73	2	2	21	1.07
105614--105651	17	2.2	17	86	9	51	73	0	0	26	0.83
105622--105663	13	3.2	13	80	12	50	71	2	0	26	0.98
105698--105728	10	3.1	10	95	0	53	35	0	32	32	1.58
107740--107776	20	1.9	19	89	10	58	43	10	24	21	1.84
111935--111979	2	22.5	2	100	0	90	48	0	0	51	1.00
121778--121822	18	2.6	18	83	13	58	31	0	6	62	1.21
125324--125417	42	2.3	41	85	5	118	27	31	20	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
125815--125909	46	2.1	45	84	5	120	23	1	8	67	1.24
125828--125944	46	2.5	45	80	6	119	25	0	11	61	1.36
126012--126051	18	2.2	18	86	0	53	50	5	5	40	1.46
126769--126846	34	2.3	34	82	8	97	50	15	17	16	1.79
126869--126954	2	43.0	2	100	0	172	0	0	50	50	1.00
128941--129073	53	2.5	53	83	11	148	24	9	11	54	1.65
128941--129087	28	5.5	25	83	11	161	23	9	11	55	1.65
129138--129206	23	3.0	23	81	10	86	43	34	0	21	1.53
129138--129194	23	2.5	23	88	5	89	42	33	0	24	1.55
129177--129295	25	4.8	25	80	7	125	47	31	2	18	1.62
129177--129296	51	2.4	50	81	9	129	48	30	2	18	1.61
132279--132363	43	2.0	43	90	4	136	48	17	10	23	1.78
138727--138792	33	2.0	33	93	0	114	37	18	15	28	1.91
144488--144527	21	1.9	21	94	0	71	30	15	7	47	1.72
144522--144620	33	3.0	33	94	1	164	32	7	15	45	1.73
144606--144660	13	4.2	13	75	13	58	34	3	12	49	1.59
144856--144912	21	2.7	21	88	0	87	21	26	24	28	1.99
145078--145116	15	2.6	15	87	0	60	28	12	12	46	1.79
150452--150500	22	2.4	21	86	10	66	46	24	4	24	1.69
151087--151325	132	1.8	132	82	4	313	44	8	9	37	1.68
151509--151541	16	2.1	16	88	11	50	60	0	0	39	0.97
152763--152828	3	22.3	3	80	9	73	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
152763--152828	16	3.8	17	82	10	71	57	0	0	42	0.98
152773--152816	14	3.1	14	83	9	63	61	0	0	38	0.96
152986--153843	75	11.3	76	95	0	1467	34	22	20	22	1.96
154519--154595	22	3.5	22	94	0	136	41	12	11	33	1.80
155025--155173	54	2.8	54	94	0	271	21	22	16	39	1.92
156921--156992	30	2.4	30	92	0	117	33	25	18	23	1.97
157017--157103	32	2.8	31	77	10	104	31	18	18	32	1.95
156984--157103	31	3.8	32	76	11	113	31	19	19	30	1.96
159637--159699	31	2.0	31	100	0	126	31	15	19	33	1.93
159877--160204	114	2.9	114	93	0	539	31	18	15	34	1.93
167578--167605	2	14.0	2	100	0	56	50	0	0	50	1.00
168601--168653	22	2.5	22	90	9	83	54	0	0	45	0.99
168586--168657	33	2.3	30	80	9	81	54	0	0	45	0.99
168595--168640	3	16.3	3	80	13	53	58	0	0	41	0.98
172994--173042	22	2.4	21	86	10	66	46	22	4	26	1.69
181012--181065	27	1.9	29	85	7	76	62	0	0	37	0.95
181010--181048	13	2.9	13	88	3	51	66	0	0	33	0.92
181051--181081	2	15.5	2	100	0	62	51	0	0	48	1.00
181012--181074	27	2.2	27	83	11	72	60	0	0	39	0.97
181439--181520	33	2.5	33	88	4	121	26	14	20	37	1.92
181574--181621	24	2.0	25	87	4	71	68	0	0	31	0.90
181969--182226	83	3.1	82	86	3	331	23	18	26	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
182259--182375	36	3.2	36	91	2	180	39	12	19	28	1.89
182280--182344	21	3.4	21	68	24	61	43	12	21	23	1.86
183084--183409	110	3.0	110	88	2	485	24	17	22	35	1.95
187113--187147	14	2.6	13	86	4	52	62	0	0	37	0.95
187113--187151	13	2.9	13	81	7	51	64	0	0	35	0.94
187525--187602	33	2.4	33	84	4	104	28	14	19	38	1.90
192569--192625	29	1.9	29	85	3	78	42	0	1	56	1.10
192578--192635	29	1.9	31	89	6	93	39	0	1	58	1.08
206153--206182	15	2.0	15	100	0	60	13	20	46	20	1.83
211119--211148	15	2.0	15	100	0	60	13	20	46	20	1.83
217050--217076	5	5.4	5	100	0	54	77	22	0	0	0.76
220897--220934	19	2.0	19	100	0	76	42	5	21	31	1.75
221366--221408	11	3.8	11	77	17	52	11	2	20	65	1.36
224018--224100	33	2.5	33	94	0	139	61	0	0	38	0.96
231357--231425	23	3.0	23	80	0	93	17	23	24	34	1.96
238277--238321	23	2.0	22	83	12	56	31	0	4	64	1.13
238291--238329	18	2.2	18	95	4	71	33	0	2	64	1.08
244234--244350	49	2.4	48	80	8	137	24	26	21	27	1.99
244234--244350	51	2.3	49	84	5	155	24	26	21	27	1.99
249917--250036	61	2.0	61	89	0	186	50	16	9	24	1.74
252330--252526	99	2.0	100	94	2	353	42	24	10	22	1.84
263323--263360	20	1.9	20	88	0	58	13	26	34	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
281350--281384	16	2.1	16	89	5	52	54	22	0	22	1.45
287389--287415	2	13.5	2	100	0	54	51	0	0	48	1.00
288716--288773	3	20.0	3	84	7	75	32	0	3	63	1.11
290314--290382	30	2.3	30	80	5	77	14	11	11	62	1.55
293481--293541	20	3.0	20	92	4	97	27	21	14	36	1.93
294151--294214	14	4.4	14	73	19	51	75	7	17	0	1.04
294184--294221	7	5.7	7	84	9	53	84	2	13	0	0.73
294146--294218	32	2.5	28	76	19	78	76	6	15	1	1.05
294146--294219	13	5.2	13	76	19	60	77	6	14	1	1.05
295411--295507	2	48.5	2	100	0	194	49	50	0	0	1.00

Tables:   1   2   3