genome.fa.s7864.2.7.7.80.10.50.1000.1.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: VEPZ01007864.1 Hibiscus syriacus cultivar Beakdansim tig00110236_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1537186

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 870 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)
12666--12705	21	1.9	21	85	10	55	35	10	2	52	1.48
15241--15310	23	3.0	23	82	0	77	24	20	25	30	1.99
19650--19702	23	2.3	23	80	0	61	28	15	22	33	1.94
30222--30254	15	2.1	16	94	5	59	42	0	9	48	1.35
30580--30631	25	2.1	25	85	3	70	46	0	0	53	1.00
30754--30819	23	2.9	23	84	6	73	50	3	4	42	1.38
30762--30832	22	3.2	22	88	6	90	50	1	4	43	1.30
31953--32016	32	2.0	31	96	3	119	45	12	14	28	1.81
37104--37128	2	12.5	2	100	0	50	52	0	0	48	1.00
38312--38367	3	18.7	3	100	0	112	67	0	0	32	0.91
38434--38466	16	1.9	18	88	11	52	48	9	0	42	1.35
38855--38891	20	1.9	19	89	10	58	45	10	24	18	1.81
39209--39238	15	2.0	15	100	0	60	40	6	0	53	1.27
39635--39695	3	20.3	3	90	6	97	31	1	1	65	1.12
41374--41483	35	3.2	34	79	14	93	34	0	3	61	1.13
41397--41483	35	2.5	35	81	14	99	39	0	2	58	1.11
42058--42126	27	2.6	27	97	0	129	39	17	8	34	1.80
43091--43138	2	24.0	2	100	0	96	50	0	0	50	1.00
51115--51172	19	2.9	19	80	10	62	46	0	1	51	1.11
51245--51389	42	3.7	36	74	17	112	53	0	2	44	1.17
51263--51391	42	3.1	42	77	9	113	51	0	2	45	1.19
51330--51387	14	4.3	14	72	16	59	60	0	1	37	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51589--51643	27	1.9	27	89	10	83	56	1	0	41	1.10
58294--58352	30	2.0	30	96	0	109	50	6	11	30	1.65
59037--59146	51	2.2	51	83	6	134	19	11	10	59	1.60
59247--59322	32	2.3	31	82	15	82	22	2	5	69	1.21
63142--63210	7	9.6	7	81	9	59	78	0	21	0	0.76
63111--63212	15	7.1	14	77	15	93	78	0	18	2	0.88
63087--63237	14	10.7	14	73	14	98	74	0	21	3	0.97
65451--65511	20	3.0	20	76	11	61	21	24	24	29	1.99
65458--65559	42	2.5	40	79	10	107	25	23	21	29	1.99
65106--65881	261	3.0	261	90	2	1197	30	17	18	33	1.94
68072--68126	25	2.2	24	81	9	67	34	3	12	49	1.59
70002--70055	6	8.2	6	78	15	54	14	1	5	77	1.03
70000--70061	28	2.3	27	80	8	72	17	1	4	75	1.05
70004--70061	21	2.8	20	80	14	64	17	1	5	75	1.06
73393--73456	19	3.4	19	80	0	74	43	6	18	31	1.75
73402--73493	19	4.8	19	72	10	71	46	7	17	28	1.75
73520--73553	12	2.8	12	90	0	59	55	0	17	26	1.42
74220--74276	23	2.5	23	97	0	105	49	3	17	29	1.63
79304--79336	2	16.5	2	100	0	66	48	0	0	51	1.00
90035--90065	16	2.0	15	93	6	53	25	25	3	45	1.69
92658--92732	29	2.6	29	84	0	96	18	40	26	14	1.90
92659--92746	29	3.0	29	84	0	95	20	37	30	11	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92963--93020	10	5.6	10	73	15	55	10	20	46	22	1.81
93040--93125	29	3.0	29	79	3	111	15	30	38	16	1.89
93900--93967	34	2.0	34	83	13	86	22	8	19	50	1.75
100327--100386	23	2.5	25	83	8	79	38	15	1	45	1.56
102060--102117	27	2.3	26	83	13	77	67	3	1	27	1.17
102354--102388	17	2.1	17	94	0	61	20	22	20	37	1.95
104358--104390	3	10.7	3	93	6	57	66	0	0	33	0.92
107646--107778	66	2.0	66	85	2	178	25	30	20	23	1.98
109904--109943	20	2.0	19	85	9	53	27	10	27	35	1.89
112216--112279	32	2.1	31	88	5	94	40	12	21	25	1.88
113776--113822	22	2.1	22	84	7	60	21	29	19	29	1.97
113815--113902	31	2.8	31	81	6	97	36	18	18	27	1.94
115151--115250	44	2.3	44	96	0	182	28	18	15	39	1.90
116644--116685	21	2.0	21	86	9	59	40	9	14	35	1.78
119345--119400	27	2.1	27	96	0	103	32	19	26	21	1.97
120057--120124	23	3.0	23	88	0	91	22	27	25	25	1.99
126978--127068	23	4.0	23	89	0	128	20	26	26	26	1.99
131058--131150	28	3.3	28	80	12	86	32	3	1	63	1.17
144861--145021	87	1.9	86	94	1	286	32	13	12	41	1.81
144861--145040	87	2.1	87	89	3	236	35	13	11	40	1.81
145229--145279	20	2.5	21	84	9	70	54	1	0	43	1.11
150961--151007	3	15.3	3	85	12	60	2	36	0	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
152739--152769	16	1.9	16	100	0	62	45	29	6	19	1.75
153516--153581	25	2.5	27	74	13	66	34	4	1	59	1.27
153519--153616	28	3.3	28	81	9	99	32	4	2	61	1.26
154434--154485	21	2.5	21	81	3	61	38	19	25	17	1.93
154474--154567	20	4.7	20	80	7	91	31	25	19	23	1.98
155119--155163	19	2.4	19	92	0	72	48	26	15	8	1.74
155159--155238	20	4.1	19	82	6	97	13	23	18	43	1.86
157381--157447	21	3.2	21	66	6	55	23	35	20	19	1.95
157329--157447	42	2.8	42	81	5	107	22	36	18	22	1.95
158808--158843	14	2.6	14	95	0	63	30	0	25	44	1.54
158968--159024	14	3.7	14	75	20	60	43	22	24	8	1.81
158950--159039	33	2.7	33	94	0	153	43	21	22	13	1.87
158950--159010	19	3.5	19	74	21	69	44	21	22	11	1.84
159035--159185	19	8.7	19	62	21	62	15	20	20	43	1.87
159039--159165	33	3.8	33	86	8	186	14	21	19	44	1.87
159040--159164	66	1.9	66	96	0	232	15	20	20	44	1.87
161456--161480	12	2.1	12	100	0	50	0	28	0	72	0.86
161655--161708	24	2.2	24	93	0	90	38	20	14	25	1.91
161671--161722	24	2.2	24	82	0	59	36	21	15	26	1.93
162762--162819	20	2.9	20	94	0	98	37	22	22	17	1.93
162842--162915	19	4.5	16	83	16	66	13	20	18	47	1.82
162838--162905	19	3.8	19	87	12	101	13	22	17	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
164926--164977	20	2.6	20	87	0	77	34	25	25	15	1.95
164968--165006	20	2.0	20	89	0	60	23	25	20	30	1.98
165497--165541	18	2.5	18	85	0	63	15	15	42	26	1.87
166860--166918	20	3.0	20	87	0	73	42	22	18	16	1.89
167181--167224	22	2.0	22	95	0	79	18	15	45	20	1.85
167412--167566	20	7.7	20	85	4	150	26	18	25	29	1.98
167392--167566	40	4.3	40	77	9	158	26	18	24	30	1.98
167453--167569	61	1.9	61	85	0	162	23	17	23	34	1.96
167453--167587	61	2.2	61	81	2	155	22	20	23	33	1.97
169575--169607	17	1.9	17	93	0	57	33	0	0	66	0.92
170025--170061	15	2.5	15	95	0	65	21	24	40	13	1.89
171196--171237	18	2.3	18	100	0	84	14	19	14	52	1.75
172183--172228	3	15.3	3	95	0	83	0	30	0	69	0.89
173698--173742	19	2.5	17	83	13	63	22	22	28	26	1.99
173704--173754	19	2.7	19	96	0	93	21	21	31	25	1.98
173742--173901	65	2.5	64	86	1	212	29	16	22	31	1.96
173912--173949	20	1.9	20	88	0	58	18	15	31	34	1.92
182443--182602	65	2.5	64	83	3	187	30	16	22	30	1.96
183797--183986	101	1.9	101	87	2	283	30	15	15	38	1.89
190741--190776	9	3.9	9	92	3	54	83	5	0	11	0.80
191731--191846	32	3.5	32	67	13	99	35	27	14	22	1.93
191728--191967	68	3.4	73	78	10	271	33	26	15	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
192573--192725	36	4.4	35	85	4	175	41	4	10	43	1.59
192636--192807	83	2.1	83	89	4	258	41	6	11	40	1.66
192701--192734	12	2.8	12	100	0	68	41	5	8	44	1.60
192714--192920	36	5.8	35	78	7	211	42	6	10	40	1.65
192870--192963	36	2.5	38	80	11	97	46	6	8	38	1.60
192989--193053	23	2.8	24	81	11	82	30	0	0	69	0.89
192992--193060	16	4.1	18	79	18	69	28	0	1	69	0.97
194255--194305	5	9.8	5	89	6	59	33	0	0	66	0.92
195209--195274	15	4.4	15	86	7	98	39	6	16	37	1.74
195203--195290	15	5.9	15	81	7	92	42	5	18	34	1.74

Tables:   1   2   3   4   5   6   7   8