genome.fa.s9582.2.7.7.80.10.50.1000.1.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

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   

This is table  1  of  24  ( 2799 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)
1640--1700	6	10.2	6	92	0	95	3	14	49	32	1.60
2658--2712	27	2.0	27	100	0	110	29	14	10	45	1.79
9867--9949	19	4.4	18	81	6	85	38	19	2	39	1.65
9867--9949	38	2.2	38	84	4	105	38	19	2	39	1.65
9880--9956	19	4.1	19	86	0	91	37	20	2	38	1.67
14665--14765	23	4.4	23	87	2	132	31	23	12	31	1.92
14664--14765	46	2.2	46	85	5	152	31	24	12	31	1.93
19361--19461	23	4.4	23	89	0	139	31	22	12	32	1.92
19361--19461	46	2.2	46	89	0	157	31	22	12	32	1.92
24019--24119	23	4.4	23	87	5	132	30	22	13	32	1.93
24019--24119	46	2.2	46	87	3	150	30	22	13	32	1.93
28313--28359	19	2.5	19	79	3	51	29	0	14	55	1.40
28241--28429	76	2.6	73	85	6	233	29	0	13	56	1.41
29010--29046	12	3.5	11	86	13	51	24	0	2	72	0.97
29097--29121	8	3.1	8	100	0	50	24	0	0	76	0.80
29107--29156	19	2.5	20	84	12	68	24	6	0	70	1.10
32785--32867	19	4.4	19	79	0	85	37	18	4	39	1.72
32795--32874	19	4.2	19	80	0	88	36	18	5	40	1.73
50976--51017	21	2.1	21	86	8	61	42	0	4	52	1.22
54200--54271	19	3.8	18	72	15	65	34	19	6	38	1.79
72798--72905	54	2.0	54	100	0	216	20	20	12	46	1.83
73462--73520	29	2.0	29	93	0	100	50	11	11	25	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
78009--78294	142	2.0	144	97	1	549	23	13	17	45	1.83
78886--79002	56	2.1	54	95	4	207	22	22	21	34	1.97
80334--80376	17	2.4	19	77	18	56	11	13	0	74	1.07
82372--82420	20	2.5	20	86	0	62	24	20	18	36	1.94
85142--85199	29	2.2	24	80	19	64	46	13	13	25	1.81
89056--89114	29	2.1	28	93	3	100	49	8	13	28	1.71
89185--89237	22	2.4	22	84	6	72	28	5	20	45	1.74
89246--89325	22	3.7	21	75	6	70	41	7	15	36	1.75
91194--91261	29	2.3	29	80	12	68	42	1	0	55	1.08
91194--91251	31	1.9	29	82	6	71	41	1	0	56	1.09
91248--91301	17	3.3	17	70	17	51	46	0	1	51	1.11
91387--91455	25	2.6	27	77	13	72	47	2	2	46	1.32
97884--97912	11	2.5	12	94	5	51	58	0	0	41	0.98
103664--103713	24	2.1	24	85	7	66	24	2	14	60	1.45
111165--111214	24	2.1	24	85	7	66	24	2	14	60	1.45
111687--111720	17	2.0	17	88	11	52	14	8	0	76	1.01
122828--122884	23	2.5	24	82	8	73	49	14	3	33	1.60
126557--126708	36	4.3	35	93	3	243	44	19	5	30	1.73
126557--126708	71	2.1	72	90	5	247	44	19	5	30	1.73
129969--130000	15	2.1	15	94	0	55	6	25	15	53	1.65
131205--131282	36	2.1	37	95	2	140	44	16	6	32	1.73
133359--133395	15	2.5	15	90	0	56	8	16	67	8	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
139352--139463	29	3.8	29	93	1	197	31	15	13	40	1.85
146725--146768	20	2.2	20	84	4	63	65	0	15	18	1.27
153613--153662	24	2.1	24	85	7	66	60	12	2	26	1.43
155646--155712	29	2.3	29	97	0	125	31	13	14	40	1.85
162112--162150	20	2.0	20	85	10	53	64	0	5	30	1.15
168664--168726	27	2.3	27	97	0	117	38	19	33	9	1.84
170296--170354	29	2.0	29	96	0	109	25	13	11	49	1.76
171648--171672	12	2.1	12	100	0	50	48	0	0	52	1.00
171621--171656	3	11.3	3	94	5	54	69	0	0	30	0.89
171934--172013	31	2.6	30	73	9	72	26	13	10	50	1.73
175708--176009	154	1.9	154	87	2	442	37	30	12	19	1.89
176086--176141	24	2.3	24	87	0	76	60	14	7	17	1.55
178307--178346	16	2.4	17	87	4	55	32	30	22	15	1.94
180277--180582	151	2.0	155	86	4	433	37	30	12	20	1.89
180604--180712	48	2.3	48	83	0	128	55	15	7	21	1.64
180604--180712	24	4.5	24	77	2	103	55	15	7	21	1.64
185251--185312	19	2.9	22	75	22	60	32	3	9	54	1.49
188739--188774	17	2.3	15	90	9	54	36	2	0	61	1.11
189146--189195	2	25.5	2	91	4	84	52	0	0	48	1.00
189237--189295	15	4.0	15	78	22	63	66	0	5	28	1.13
190585--190649	3	21.0	3	84	6	85	63	0	0	36	0.95
190766--190858	45	2.1	45	95	0	168	33	18	22	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
190864--191381	76	6.8	76	96	0	937	35	22	18	23	1.96
191679--192110	215	2.0	216	99	0	857	26	15	18	40	1.90
192451--192527	22	3.5	22	89	0	127	38	12	11	36	1.80
192885--193018	50	2.6	50	79	4	124	27	18	13	40	1.88
195066--195291	113	2.0	114	85	4	305	32	19	14	33	1.92
197480--197552	7	10.4	7	84	8	69	0	19	0	80	0.71
197471--197552	41	2.0	40	90	2	128	0	19	0	80	0.71
197536--197589	26	2.0	26	86	10	74	5	18	11	64	1.44
202542--202577	14	2.5	14	86	4	54	72	0	5	22	1.05
203027--203062	17	2.3	15	90	9	54	36	2	0	61	1.11
203433--203475	2	21.5	2	100	0	86	51	0	0	48	1.00
203525--203584	15	4.1	14	78	19	61	68	0	5	26	1.10
204762--204829	12	5.4	13	84	7	79	58	0	0	41	0.98
204762--204830	21	3.1	21	70	25	54	59	0	0	40	0.97
204769--204830	3	20.0	3	83	6	79	61	0	0	38	0.96
211459--211494	14	2.5	14	86	4	54	72	0	5	22	1.05
211944--211979	17	2.2	17	90	9	58	36	2	0	61	1.11
213772--213811	3	13.3	3	83	0	53	60	0	0	40	0.97
218815--218876	30	2.0	31	96	3	117	14	9	16	59	1.60
225304--225789	46	10.5	46	79	5	462	38	10	19	31	1.85
225304--225794	231	2.1	230	78	5	508	39	10	18	31	1.84
230412--230549	69	2.0	69	98	0	267	36	9	18	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
238202--238260	2	30.0	2	96	3	111	50	0	0	49	1.00
238365--238423	27	2.2	27	88	11	86	64	10	11	13	1.50
238906--239005	46	2.2	46	96	0	182	35	33	17	15	1.90
240026--240061	3	12.0	3	93	0	63	63	2	0	33	1.08
240931--241003	31	2.3	31	80	2	83	27	31	26	15	1.95
265583--265683	40	2.6	37	80	10	114	44	0	5	48	1.33
265686--265734	17	2.9	16	80	19	55	26	0	0	73	0.83
265688--265731	23	1.9	23	86	9	63	29	0	0	70	0.88
269004--269061	19	2.9	21	75	10	59	41	1	3	53	1.28
269076--269114	2	19.5	2	100	0	78	51	0	0	48	1.00
286635--286987	178	2.0	178	94	0	625	36	7	11	44	1.69
289637--289666	8	3.8	8	90	0	51	30	0	0	70	0.88
297436--297473	19	2.0	19	100	0	76	47	10	0	42	1.38
302427--302477	24	2.1	25	85	3	68	33	31	7	27	1.85
304419--304477	29	2.0	29	100	0	118	23	13	13	49	1.78
309108--309166	29	2.0	29	100	0	118	23	13	13	49	1.78
313473--313516	19	2.4	17	82	14	52	36	2	2	59	1.23
321883--321933	21	2.5	20	81	9	59	33	23	15	27	1.95
324816--324858	20	2.2	20	91	0	68	34	18	11	34	1.87
325320--325358	20	2.0	20	100	0	78	41	17	5	35	1.72
342642--343148	252	2.0	252	95	0	915	37	12	14	35	1.84
343789--343848	31	1.9	32	83	10	79	33	3	3	60	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
346327--346400	20	3.7	20	76	3	76	31	21	28	18	1.97
346421--346519	42	2.4	42	85	10	123	22	20	35	22	1.96
346435--346477	22	1.9	23	90	4	70	20	20	32	25	1.97
346421--346519	21	4.8	20	80	13	110	22	20	35	22	1.96
346599--346658	29	2.0	30	87	6	86	40	16	10	33	1.82
346599--346658	31	2.0	29	87	6	84	40	16	10	33	1.82
349893--349986	20	4.7	20	84	5	109	30	23	25	20	1.98
350021--350146	22	5.8	23	78	16	144	22	20	34	23	1.97
350007--350211	42	4.8	42	89	5	263	23	19	34	23	1.97
350007--350211	21	9.8	20	79	14	173	23	19	34	23	1.97

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