genome.fa.s1579.2.7.7.80.10.50.1000.1.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: VEPZ01001579.1 Hibiscus syriacus cultivar Beakdansim tig00003144_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  248634

Tables:   1   2   

This is table  1  of  2  ( 129 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)
5466--5500	2	17.5	2	93	0	52	45	0	54	0	0.99
6264--6297	14	2.4	14	95	0	59	58	2	17	20	1.51
7893--7929	17	2.1	18	90	5	58	64	0	2	32	1.07
13413--13460	22	2.1	23	88	3	71	29	2	0	68	1.01
13416--13458	18	2.4	18	88	0	59	27	2	0	69	1.00
15430--15496	33	2.0	34	97	2	127	41	11	11	34	1.79
16535--16578	15	2.9	15	86	0	61	22	6	0	70	1.11
16535--16579	5	9.0	5	80	0	54	22	6	0	71	1.09
19572--19602	8	3.9	8	100	0	62	22	0	0	77	0.77
19574--19609	16	2.3	16	90	4	56	22	2	0	75	0.94
24401--24446	24	1.9	24	95	0	83	21	26	0	52	1.47
25967--26009	22	2.0	22	85	0	59	44	9	2	44	1.49
27507--27532	2	13.0	2	100	0	52	50	0	0	50	1.00
27959--28001	16	2.8	15	82	13	52	39	0	0	60	0.97
28515--28566	23	2.3	23	93	0	95	67	3	3	25	1.25
30311--30367	25	2.3	25	87	6	80	43	3	19	33	1.68
31572--31662	31	2.9	31	96	0	173	18	2	36	42	1.63
33920--33952	14	2.4	14	100	0	66	21	30	33	15	1.94
34642--34705	24	2.7	23	83	9	74	53	17	7	21	1.69
40214--40274	23	2.7	23	86	0	95	24	27	26	21	1.99
41954--41997	21	2.1	21	86	0	61	15	27	27	29	1.96
45035--45095	23	2.7	23	89	0	95	26	27	26	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48040--48092	23	2.3	24	78	15	58	28	20	0	50	1.48
50155--50215	23	2.7	23	89	0	95	26	27	26	19	1.99
53126--53178	23	2.3	24	78	15	58	28	20	0	50	1.48
55240--55300	23	2.7	23	89	0	95	26	27	26	19	1.99
60545--60585	2	21.0	2	95	5	75	48	0	0	51	1.00
61986--62375	189	2.1	189	93	0	663	23	11	30	35	1.90
63611--63636	2	13.0	2	100	0	52	50	0	0	50	1.00
65211--65253	19	2.2	20	84	12	54	41	6	20	30	1.79
65693--65743	25	2.0	25	84	3	66	33	0	9	56	1.32
68758--68819	32	1.9	32	83	6	81	46	16	20	16	1.83
68764--68836	17	4.4	17	70	13	62	45	16	21	16	1.85
69353--69727	183	2.1	182	96	2	700	24	24	15	34	1.95
74282--74313	17	1.9	16	93	6	55	43	3	0	53	1.16
77234--77310	33	2.3	33	88	2	109	27	15	20	36	1.93
81959--82095	33	4.0	33	80	5	139	25	14	24	35	1.93
96115--96167	3	17.7	3	84	7	72	33	1	0	64	1.05
97363--97410	14	3.3	15	77	19	57	31	0	0	68	0.90
97417--97462	3	15.3	3	82	8	58	26	4	0	69	1.07
97417--97465	19	2.5	19	81	15	64	26	4	0	69	1.06
97651--97692	20	2.2	19	86	4	57	33	0	2	64	1.07
97748--97806	30	2.0	29	81	12	68	49	1	0	49	1.11
99861--99915	14	3.9	14	83	4	65	23	14	9	52	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
103452--103504	26	2.0	26	89	7	81	71	11	13	3	1.26
105656--105875	114	1.9	114	92	0	368	33	15	20	30	1.94
108407--108461	22	2.5	22	90	0	92	32	10	16	40	1.83
108900--109853	110	8.5	110	87	3	1244	38	13	19	28	1.89
109121--109184	20	3.2	20	61	12	51	45	9	20	25	1.80
108868--109856	222	4.4	225	89	2	1330	38	13	19	29	1.89
109796--109889	40	2.4	40	94	1	163	47	8	23	20	1.77
109830--110150	124	2.6	123	85	4	425	40	14	19	25	1.90
110383--110434	9	5.8	9	82	8	61	44	0	0	55	0.99
110394--110436	12	3.6	12	81	12	52	44	0	0	55	0.99
110375--110434	18	3.4	18	75	11	61	41	0	0	58	0.98
111554--111634	7	11.6	7	73	16	53	29	2	1	66	1.12
111560--111615	21	2.7	21	77	8	60	30	3	1	64	1.21
111589--111684	14	6.9	14	69	15	56	28	2	2	67	1.13
111562--111646	42	2.0	42	84	8	111	29	2	1	67	1.11
111583--111684	27	3.7	26	78	13	89	28	1	1	67	1.12
111587--111684	42	2.3	43	81	6	103	28	2	2	67	1.13
111884--111925	20	2.2	19	86	4	57	33	0	2	64	1.07
113215--113243	2	14.5	2	100	0	58	0	51	0	48	1.00
116562--116725	76	2.2	76	87	3	233	56	10	2	30	1.46
118341--118372	15	2.1	15	100	0	64	6	21	12	59	1.55
124110--124147	20	1.9	20	88	0	58	76	0	2	21	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
145591--145657	3	22.0	3	85	14	93	32	0	1	65	1.02
152640--152689	16	3.1	16	91	0	82	50	24	0	26	1.50
152644--152689	20	2.3	20	85	7	58	50	23	0	26	1.50
152968--153089	37	3.4	36	77	10	133	28	15	11	44	1.81
153069--153500	104	4.1	104	83	6	527	31	16	11	39	1.85
153069--153500	210	2.1	207	83	6	534	31	16	11	39	1.85
153439--153576	36	3.8	35	82	7	152	33	18	12	36	1.88
153749--153812	33	1.9	33	83	0	83	29	18	12	39	1.88
154478--154634	66	2.4	66	80	7	169	24	15	15	43	1.86
155086--155120	8	4.5	8	85	7	54	0	37	2	60	1.12
155279--155326	3	15.7	3	87	12	71	29	0	2	68	1.01
155357--155396	17	2.4	17	91	0	71	50	22	20	7	1.73
156769--156802	15	2.3	15	94	0	59	38	32	14	14	1.87
156914--156982	24	2.8	26	83	12	85	31	24	5	37	1.79
156947--156982	12	3.0	12	91	0	63	36	25	5	33	1.79
157354--157495	64	2.2	63	83	7	171	29	19	17	33	1.95
162599--162633	15	2.3	15	95	0	61	34	28	17	20	1.95
162744--162812	24	2.8	26	83	12	85	31	24	5	37	1.79
162777--162812	12	3.0	12	91	0	63	36	25	5	33	1.79
163120--163346	64	3.5	63	81	5	215	29	18	18	33	1.95
168444--168507	15	4.3	15	95	0	119	34	31	18	15	1.93
168652--168687	12	3.0	12	87	0	54	36	22	5	36	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
168995--169221	64	3.5	64	84	4	244	28	19	19	32	1.96
172079--172121	18	2.4	18	100	0	86	20	55	11	11	1.66
178428--178483	18	3.2	18	95	5	98	48	32	0	19	1.49
178524--178559	18	2.0	18	100	0	72	44	33	0	22	1.53
178448--178617	76	2.2	76	100	0	340	38	28	11	21	1.88
178613--178701	46	1.9	46	95	4	162	31	21	20	26	1.98
181731--181794	30	2.1	30	88	0	92	35	26	29	7	1.85
183906--183963	26	2.2	26	93	0	98	22	12	37	27	1.89
187325--187506	91	2.0	91	95	0	328	23	22	15	37	1.93
187186--187645	230	2.0	230	88	2	683	24	21	16	36	1.94
187416--187784	139	2.7	140	90	3	609	23	21	17	36	1.94
187558--188008	230	2.0	230	92	1	753	24	21	16	37	1.93
187694--187875	91	2.0	91	93	0	310	25	21	14	38	1.91
187191--188008	369	2.2	369	93	0	1388	24	21	16	37	1.94
188667--189116	227	2.0	230	91	2	737	36	17	22	24	1.95
188891--189254	138	2.6	136	91	4	572	35	18	21	23	1.96
189165--189346	91	2.0	91	93	0	310	38	16	19	25	1.92
189027--189485	230	2.0	229	91	3	737	36	18	21	24	1.95
191956--192064	53	2.1	53	100	0	218	41	14	14	29	1.86
198636--198676	21	2.0	20	85	4	55	36	2	14	46	1.58
202178--202229	24	2.2	24	86	6	70	26	7	1	63	1.32
208603--208629	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
210325--210422	28	3.5	28	68	12	74	38	4	12	44	1.61
210386--210485	28	3.5	28	73	11	87	37	1	12	50	1.46
212277--212335	29	2.0	29	100	0	118	23	13	13	49	1.78
216961--217019	29	2.0	29	96	0	109	23	13	11	50	1.74
221631--221687	23	2.8	19	73	19	60	50	17	12	19	1.77
223211--223235	12	2.1	12	100	0	50	60	0	0	40	0.97
224700--224768	25	2.8	24	83	14	81	78	4	1	15	0.98
224706--224769	9	6.9	9	75	16	51	76	3	1	18	1.00
224893--224933	12	3.4	12	93	0	64	43	0	4	51	1.23
224883--224924	2	21.5	2	85	4	59	45	2	2	50	1.27

Tables:   1   2