genome.fa.s8235.2.7.7.80.10.50.1000.1.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: VEPZ01008235.1 Hibiscus syriacus cultivar Beakdansim tig00110879_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  820011

Tables:   1   2   3   4   

This is table  1  of  4  ( 451 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)
1398--1436	20	2.0	20	89	0	60	20	15	33	30	1.94
6906--7037	62	2.1	63	95	1	239	33	17	10	38	1.84
9963--10087	64	2.0	63	84	9	164	32	15	23	29	1.95
10958--11054	33	3.0	33	95	1	169	11	9	39	40	1.73
27601--27642	3	14.0	3	85	9	59	61	0	0	38	0.96
39496--39653	21	7.8	20	72	7	86	38	25	17	18	1.92
39620--39774	40	3.8	40	82	4	186	37	26	18	18	1.93
39620--39773	20	7.7	20	80	7	168	37	26	18	18	1.93
40156--40226	33	2.2	33	92	0	115	11	22	18	47	1.80
40306--40415	21	5.8	20	74	17	108	45	18	24	11	1.83
40299--40415	41	3.1	38	81	14	145	46	17	25	11	1.81
40366--40420	14	3.6	14	73	21	56	45	21	23	9	1.80
40358--40438	33	2.5	33	93	0	135	46	20	22	9	1.80
40434--40527	19	5.5	19	68	23	82	10	23	21	44	1.83
40456--40545	14	5.7	14	67	23	54	10	24	21	44	1.82
40439--40552	33	3.5	33	95	1	203	10	23	19	46	1.81
42244--42802	93	6.1	93	97	1	1072	21	12	19	46	1.83
42244--42802	276	2.0	278	97	1	1070	21	12	19	46	1.83
42850--42977	19	7.3	19	73	17	116	45	28	17	8	1.78
42886--42977	33	2.8	32	90	6	141	45	28	18	7	1.76
42973--43107	19	7.6	19	73	16	110	11	17	23	47	1.80
42995--43051	14	3.7	14	77	20	60	10	21	22	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42978--43070	33	2.8	33	91	0	150	10	18	21	49	1.77
45028--45066	14	2.7	14	92	4	60	35	0	23	41	1.55
45169--45285	19	6.4	19	87	10	181	46	17	22	14	1.84
45169--45285	33	3.2	36	84	13	159	46	17	22	14	1.84
45187--45304	53	2.2	53	96	1	220	44	17	24	13	1.85
45294--45461	19	9.7	19	74	20	163	15	21	18	44	1.86
45300--45475	33	5.2	33	71	18	148	14	21	18	45	1.85
45294--45461	52	3.2	52	92	5	270	15	21	18	44	1.86
47897--47943	24	2.0	24	87	8	69	38	21	14	25	1.92
48623--48932	20	15.5	20	87	1	352	20	17	24	37	1.94
48919--49001	21	4.0	21	73	6	78	25	16	24	33	1.96
48899--48997	42	2.4	43	77	11	100	21	18	23	37	1.94
49315--49387	36	2.0	36	100	0	146	26	21	13	38	1.91
54177--54203	3	9.0	3	100	0	54	66	0	33	0	0.92
55052--55090	12	3.3	12	82	7	53	66	0	0	33	0.92
56953--57108	65	2.4	65	90	3	235	27	23	19	30	1.98
57338--57382	19	2.3	20	85	11	67	57	8	24	8	1.57
59825--59876	21	2.5	21	100	0	104	28	23	19	28	1.98
65510--65605	45	2.2	44	83	12	117	27	22	20	29	1.99
65509--65579	21	3.2	22	72	18	67	30	22	19	26	1.98
68225--68270	19	2.4	19	100	0	92	30	32	17	19	1.95
72654--72773	44	2.8	43	84	5	152	33	21	17	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72692--72775	21	4.0	21	79	13	100	30	21	19	28	1.97
73173--73218	20	2.2	21	84	7	58	21	0	13	65	1.26
73234--73267	13	2.6	13	85	0	50	35	14	5	44	1.70
78429--78472	22	2.0	22	90	0	70	40	0	9	50	1.34
78494--78552	31	1.9	31	92	0	100	42	8	8	40	1.66
82452--82528	33	2.4	32	84	4	109	44	12	9	33	1.75
86140--86195	29	1.9	29	96	0	103	12	37	30	19	1.89
86213--86288	23	3.3	23	90	5	118	11	35	25	27	1.91
86339--86396	29	2.0	29	89	0	89	22	27	36	13	1.92
97220--97265	6	8.2	6	92	7	71	17	0	0	82	0.67
98535--98579	23	2.0	23	90	0	72	24	11	2	62	1.40
100039--100339	150	2.0	151	98	1	579	34	16	11	36	1.86
100680--100741	21	3.0	21	73	0	61	33	9	8	48	1.65
100741--100823	42	1.9	42	85	7	112	45	6	7	40	1.56
101464--101528	2	33.5	2	93	6	116	50	0	0	49	1.00
101736--101817	2	44.0	2	81	13	104	47	0	0	52	1.00
108577--108603	14	1.9	14	100	0	54	22	7	14	55	1.64
109832--109872	16	2.7	16	81	7	50	53	4	0	41	1.22
112466--112525	23	2.6	23	97	0	111	23	31	26	18	1.97
113125--113270	64	2.2	65	89	4	215	15	24	28	31	1.96
114821--114857	19	1.9	19	94	0	65	35	13	5	45	1.66
116708--116817	40	2.8	40	82	0	157	33	12	21	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
117803--117844	14	3.0	14	78	0	57	21	23	14	40	1.90
118842--118887	19	2.3	20	96	3	85	45	4	19	30	1.70
121851--122077	106	2.1	109	94	4	399	29	10	18	40	1.85
123279--123313	17	2.1	17	100	0	70	28	0	17	54	1.43
123377--123414	14	2.7	14	87	0	58	57	5	13	23	1.56
123846--123923	32	2.5	31	81	4	93	37	10	19	33	1.85
127058--127097	17	2.2	19	86	8	57	27	5	17	50	1.67
127282--127311	2	15.0	2	100	0	60	50	0	0	50	1.00
128327--128378	2	26.0	2	100	0	104	50	0	0	50	1.00
132241--132284	15	2.8	16	80	16	56	77	4	4	13	1.08
132241--132391	55	2.9	50	74	18	139	74	2	4	18	1.11
132300--132390	27	3.4	25	77	17	85	76	1	5	16	1.02
132265--132345	13	5.9	13	71	15	56	72	2	3	20	1.11
132324--132361	20	2.0	20	89	5	60	76	0	7	15	1.01
132323--132392	11	6.1	11	73	8	50	78	0	5	15	0.93
132320--132386	35	1.9	35	85	11	93	77	0	5	16	0.95
132300--132392	18	4.9	19	72	10	75	77	1	5	16	1.01
133496--133535	16	2.4	16	87	8	53	50	5	2	42	1.37
135907--135955	22	2.2	22	79	13	64	65	0	2	32	1.04
135977--136009	16	2.1	16	88	5	50	36	0	0	63	0.95
144528--144775	124	2.0	124	98	0	478	39	22	14	23	1.91
146254--146308	3	18.3	3	84	0	74	29	36	32	1	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
146254--146308	18	3.1	18	89	0	83	29	36	32	1	1.68
146850--146948	3	33.0	3	88	8	148	34	0	2	63	1.06
147403--147447	10	4.5	10	80	0	54	48	24	26	0	1.51
149293--149329	15	2.7	15	88	12	53	24	5	8	62	1.44
156229--156536	114	2.8	113	89	4	443	32	15	20	31	1.94
158959--159038	22	3.6	22	70	0	70	36	12	11	40	1.79
159704--161485	76	23.5	76	97	0	3255	22	21	21	35	1.96
161610--161725	3	38.0	3	89	3	178	34	0	2	62	1.09
162180--162224	10	4.5	10	80	0	54	48	24	26	0	1.51
164510--164559	23	2.2	23	96	0	91	36	14	8	42	1.74
169640--169684	21	2.2	20	84	11	56	53	6	2	37	1.40
188224--188285	3	21.0	3	86	3	54	40	0	0	59	0.97
188235--188296	30	2.1	30	87	6	90	48	0	0	51	1.00
188233--188314	33	2.5	32	84	9	96	46	0	0	53	1.00
188944--188997	22	2.5	22	75	6	56	16	12	50	20	1.78
190388--190437	25	2.0	25	96	0	91	46	12	18	24	1.82
190515--190541	4	6.8	4	100	0	54	25	0	25	48	1.52
195046--195128	41	2.0	42	85	2	114	48	12	20	19	1.80
199572--199644	18	3.9	18	85	7	110	27	31	21	19	1.97
199571--199647	38	2.0	38	94	0	136	27	29	22	20	1.98
207818--207925	54	2.0	54	92	0	180	35	13	24	26	1.93
208290--208358	22	3.1	22	83	6	86	34	13	13	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
208968--209368	177	2.3	177	89	3	585	31	18	19	29	1.96
209703--209779	3	26.0	3	84	2	84	38	0	0	61	0.96
216359--216497	70	2.0	71	83	9	178	43	17	12	25	1.84
223369--223411	21	2.0	22	81	9	52	32	13	4	48	1.63
233120--233168	22	2.3	21	82	3	62	53	2	0	44	1.12
233127--233180	22	2.4	21	84	9	63	55	0	0	44	0.99
234284--234354	3	24.3	3	78	16	78	59	0	0	40	0.98
234284--234352	20	3.4	21	90	8	115	59	0	0	40	0.97
234284--234354	15	4.9	14	83	13	90	59	0	0	40	0.98
234508--235753	76	16.4	76	97	0	2321	34	21	21	21	1.97

Tables:   1   2   3   4