genome.fa.s8323.2.7.7.80.10.50.1000.1.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  1  of  26  ( 3017 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)
333--389	29	2.0	29	96	3	107	47	3	17	31	1.65
1550--1649	31	3.3	31	88	5	159	27	12	9	52	1.68
1570--1644	29	2.6	27	91	4	78	28	9	9	53	1.64
2679--2776	31	3.2	31	88	2	153	27	9	9	54	1.62
4505--4617	31	3.7	31	83	2	156	28	9	7	53	1.61
4500--4614	61	1.9	61	92	0	194	28	8	8	53	1.61
6409--6463	27	2.1	27	82	3	67	34	7	9	49	1.62
6455--6511	29	2.0	29	89	0	87	35	10	15	38	1.82
9541--9578	18	2.1	18	90	0	58	18	13	26	42	1.87
12043--12206	10	15.8	10	72	17	72	1	21	0	76	0.85
12038--12204	17	9.9	17	77	18	163	1	21	0	77	0.84
12038--12204	6	28.2	6	70	20	95	1	21	0	77	0.84
13269--13295	14	1.9	14	100	0	54	44	0	11	44	1.39
13777--14135	131	2.7	131	86	0	520	41	16	10	31	1.83
16225--16284	26	2.3	26	85	0	75	21	10	48	20	1.78
16421--16473	3	18.3	3	81	18	60	69	1	0	28	0.99
16664--17116	133	3.4	132	80	5	500	30	14	20	35	1.92
17384--17933	240	2.3	241	85	4	742	35	16	16	31	1.91
20608--20713	46	2.3	46	100	0	212	29	21	16	32	1.96
20545--20682	64	2.2	63	82	10	156	28	20	21	29	1.98
20543--20749	111	1.9	110	88	7	312	28	19	21	30	1.97
20654--20799	65	2.3	63	81	11	163	26	18	22	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
21139--21199	24	2.5	25	92	5	99	26	31	1	40	1.66
23301--23382	23	3.7	22	74	6	94	25	23	24	26	2.00
29213--29335	65	1.9	64	81	5	149	26	17	21	34	1.95
33049--33107	31	1.9	31	89	0	91	37	8	25	28	1.85
35748--36121	132	2.8	132	80	2	430	40	16	10	31	1.83
37903--37932	8	3.9	8	91	8	53	10	0	23	66	1.21
37903--37931	15	1.9	15	100	0	58	10	0	20	68	1.18
38045--38108	26	2.5	26	78	0	74	20	12	46	20	1.82
54108--54172	14	4.6	14	76	5	60	27	26	18	27	1.98
56975--57011	2	18.5	2	100	0	74	51	0	0	48	1.00
57207--57232	13	2.0	13	100	0	52	30	15	23	30	1.95
69940--70339	81	4.9	81	86	1	507	31	21	12	35	1.90
69940--70338	162	2.5	162	88	1	559	31	21	12	35	1.90
70288--70498	68	3.1	68	88	2	316	26	24	16	32	1.96
71004--71043	21	1.9	21	84	0	53	27	12	2	57	1.48
70830--71177	178	2.0	178	98	1	680	38	15	14	31	1.87
72494--72579	33	2.7	33	87	5	97	25	2	11	60	1.43
72505--72579	33	2.3	33	93	2	125	25	1	12	61	1.38
73187--73227	18	2.2	18	86	4	55	53	0	0	46	1.00
74665--74919	108	2.3	107	82	6	273	46	16	15	21	1.84
75788--75823	12	3.1	12	92	4	56	63	0	5	30	1.17
75791--75823	6	5.7	6	85	7	50	63	0	3	33	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76826--77519	69	9.9	69	82	5	739	28	15	27	28	1.96
76938--77450	285	1.8	285	86	1	760	28	15	27	28	1.96
78317--78385	32	2.2	32	89	0	102	52	13	4	30	1.59
78331--78385	18	3.3	18	68	19	55	52	10	5	30	1.59
78445--78469	2	12.5	2	100	0	50	52	0	0	48	1.00
78664--78716	27	2.0	27	100	0	106	33	3	22	39	1.72
84301--84327	4	6.8	4	100	0	54	74	0	0	25	0.83
84999--85039	15	2.7	15	76	0	55	39	4	7	48	1.52
85761--85899	60	2.3	60	87	7	203	32	20	17	30	1.95
86113--86225	60	1.9	60	86	0	163	34	17	13	34	1.89
87359--87396	14	2.7	14	91	0	58	23	50	21	5	1.69
93872--93906	14	2.5	14	95	0	61	20	54	20	5	1.64
93900--93934	17	2.1	17	88	0	52	20	45	20	14	1.85
93924--93954	7	4.4	7	100	0	62	16	29	29	25	1.96
104666--104779	6	18.8	6	82	12	90	74	0	21	4	0.99
104670--104774	15	6.9	15	83	4	104	74	0	21	3	0.98
104670--104764	9	10.2	9	82	6	82	73	0	23	3	0.97
104757--104802	13	3.7	12	88	8	65	80	2	4	13	0.95
104763--104802	20	2.0	20	85	9	55	80	2	2	15	0.93
108124--108204	40	2.0	40	80	4	92	24	23	24	27	2.00
108324--108441	24	5.2	24	61	19	63	35	9	20	34	1.85
108285--108441	45	3.5	45	93	2	264	36	8	20	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108911--108941	7	4.4	7	100	0	62	29	29	0	41	1.56
111812--111965	42	3.7	42	85	2	184	26	15	23	34	1.95
115234--115283	19	2.7	19	84	9	68	24	16	36	24	1.94
115127--115285	65	2.5	65	83	5	189	25	17	25	30	1.97
115296--115333	20	1.9	20	94	0	67	23	15	26	34	1.95
115657--115712	28	2.0	28	100	0	112	39	32	3	25	1.73
117950--118044	45	2.1	44	81	9	104	29	21	22	27	1.99
123948--123996	19	2.7	18	81	12	57	22	16	36	24	1.94
124009--124047	20	2.0	20	85	10	53	25	12	28	33	1.93
125592--125703	60	1.9	59	81	1	134	37	16	15	30	1.90
142117--142157	21	2.0	21	85	0	55	85	0	4	9	0.73
143373--143437	20	3.3	20	67	18	55	44	12	21	21	1.85
144430--144512	30	2.8	30	85	1	105	33	30	19	16	1.94
145762--145819	20	2.6	22	86	10	75	25	22	22	29	1.99
153224--153248	3	8.3	3	100	0	50	0	36	0	64	0.94
169564--169601	20	1.9	20	84	10	51	31	28	10	28	1.90
173827--173876	26	1.9	26	91	0	82	36	18	14	32	1.90
175029--175075	12	3.9	12	80	8	60	38	0	44	17	1.48
185958--185992	7	5.3	7	93	6	56	0	8	91	0	0.42
186449--186527	24	3.3	24	96	0	149	49	0	8	41	1.34
197071--197228	21	7.8	20	70	7	77	37	25	17	18	1.93
197195--197444	20	12.5	20	84	3	261	37	24	18	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
198127--198173	24	2.0	24	87	8	69	25	14	21	38	1.92
198347--198371	12	2.1	12	100	0	50	72	0	28	0	0.86
199670--199767	19	5.4	19	84	13	143	14	22	17	45	1.84
199651--199767	53	2.2	53	98	1	227	13	23	17	44	1.85
199844--199898	14	3.6	14	73	21	56	45	20	23	10	1.82
199826--199916	33	2.8	33	96	3	166	43	18	24	13	1.85
199858--199973	51	2.2	52	93	1	198	43	18	21	16	1.87
199980--200079	19	5.5	19	84	12	147	15	23	17	45	1.85
199963--200079	53	2.2	53	95	1	209	14	24	17	43	1.86
200185--200221	14	2.6	14	91	0	65	45	21	0	32	1.52
202199--202255	14	3.7	14	77	20	60	45	22	21	10	1.82
202180--202272	33	2.8	33	95	0	168	47	21	20	10	1.80
202143--202277	19	7.6	19	76	16	128	45	23	19	11	1.82
202273--202382	19	6.3	18	71	20	83	9	17	28	45	1.78
202273--202364	33	2.8	33	93	3	150	7	18	28	45	1.76
202426--202899	93	5.1	93	99	0	930	45	18	12	22	1.83
204607--204696	14	5.7	14	74	23	81	41	24	25	8	1.84
204599--204713	33	3.5	33	95	0	203	44	21	24	9	1.82
204606--204718	19	6.8	18	72	23	88	42	23	24	9	1.84
204730--204785	14	3.7	14	78	17	67	8	25	23	42	1.82
204725--204793	32	2.1	33	97	2	131	8	24	21	44	1.80
204769--204844	20	3.8	20	85	3	107	13	25	18	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
204769--204845	41	1.9	40	91	2	127	12	25	18	42	1.86
204924--204994	33	2.2	33	89	0	106	47	16	23	11	1.79
205176--205230	22	2.5	22	81	0	74	20	16	40	23	1.91
205353--205434	40	2.1	40	81	6	96	23	14	23	39	1.91
205376--205568	20	9.6	20	83	3	219	19	20	25	35	1.96
205375--205690	60	5.2	60	78	9	200	19	18	25	36	1.95
205555--205637	21	4.0	21	73	6	78	25	16	22	34	1.95
205535--205633	42	2.4	43	77	11	100	21	18	22	38	1.93
213010--213042	17	2.0	17	88	5	50	21	3	42	33	1.68
216378--216417	20	2.1	19	85	4	53	35	10	32	22	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26