genome.fa.s8539.2.7.7.80.10.50.1000.1.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   27   28   29   30   31   

This is table  1  of  31  ( 3630 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)
427--542	3	39.0	3	83	8	121	39	0	0	59	1.03
427--555	28	4.7	28	75	10	124	41	0	0	57	1.04
5111--5151	20	2.0	20	90	0	64	9	12	39	39	1.76
5114--5160	20	2.3	20	81	0	58	14	14	29	40	1.87
14406--14463	11	5.3	11	89	4	73	58	20	8	12	1.59
14416--14467	11	4.7	11	92	0	77	57	19	7	15	1.62
15725--15811	41	2.1	43	86	4	124	49	3	12	34	1.58
15889--15928	20	2.0	20	95	4	73	15	7	0	77	0.98
16025--16053	13	2.1	14	93	6	51	13	0	3	82	0.79
16464--16524	30	2.0	30	100	0	122	19	22	19	37	1.94
21446--21491	20	2.3	20	85	3	58	50	4	13	32	1.61
23658--23747	42	2.1	43	86	10	123	62	2	12	23	1.41
25098--25144	7	6.7	7	76	9	51	76	0	0	23	0.78
25093--25173	11	7.0	11	75	20	76	74	1	1	23	0.97
25098--25163	18	3.7	18	82	10	82	74	1	0	24	0.91
25098--25193	35	2.8	34	78	15	101	69	2	1	27	1.06
25179--25375	37	5.3	36	83	6	157	45	6	3	44	1.45
25204--25450	37	6.9	36	79	13	212	42	8	4	45	1.52
25347--25414	28	2.4	28	90	4	102	42	10	5	41	1.63
25414--25479	26	2.6	25	83	4	87	42	12	4	40	1.62
26801--26895	46	2.1	46	100	0	190	27	15	18	37	1.92
32270--32356	41	2.1	42	85	6	115	62	3	12	21	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32372--32438	2	33.5	2	100	0	134	50	0	0	49	1.00
33691--33799	10	10.4	10	72	17	71	71	0	0	26	0.98
33715--33770	14	3.9	14	76	15	60	73	0	1	25	0.93
33710--33799	31	2.9	31	83	9	105	70	1	1	27	1.02
33696--33761	7	8.2	8	71	24	50	74	0	1	24	0.91
33780--34052	36	7.3	36	80	6	185	44	6	3	45	1.48
33810--34065	39	6.8	39	85	8	320	42	7	4	45	1.51
33810--34065	114	2.3	112	87	6	358	42	7	4	45	1.51
33805--34065	75	3.5	75	86	7	311	42	7	4	46	1.51
34026--34079	28	1.9	28	88	0	81	44	7	3	44	1.49
33993--34128	63	2.2	60	88	6	191	42	8	4	44	1.55
35314--35338	2	12.5	2	100	0	50	52	0	0	48	1.00
35617--35645	2	14.5	2	100	0	58	51	0	0	48	1.00
35824--36148	178	1.9	175	92	7	556	58	4	6	30	1.44
36482--36549	35	1.9	35	100	0	136	27	20	11	39	1.88
37033--37766	106	7.0	106	86	4	958	23	19	22	34	1.97
37177--37755	305	1.9	306	92	1	973	23	18	22	34	1.96
38762--38902	74	1.9	76	82	4	178	11	23	12	53	1.70
46014--46054	18	2.3	18	86	0	55	68	2	14	14	1.32
46245--46321	41	1.9	40	86	5	111	54	5	23	16	1.62
46441--46475	2	17.5	2	100	0	70	51	0	0	48	1.00
46651--46684	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46917--46952	18	2.1	18	89	5	56	66	2	5	25	1.27
46657--47003	176	1.9	182	91	4	580	55	4	7	32	1.46
47331--47402	35	2.1	35	94	0	126	27	20	9	41	1.84
52641--52676	18	2.0	18	88	0	54	11	13	0	75	1.06
60081--60120	21	1.9	21	89	0	62	15	5	10	70	1.32
64999--65062	31	2.0	33	84	6	87	48	6	10	34	1.64
68940--69073	67	2.0	67	98	0	259	23	18	17	39	1.92
69885--69914	2	15.0	2	100	0	60	50	0	0	50	1.00
71373--71438	20	3.3	20	97	0	123	46	25	10	16	1.79
71593--71642	22	2.3	22	89	3	75	22	46	14	18	1.84
71586--71642	21	2.7	21	83	2	78	21	45	17	15	1.85
72051--72153	20	5.2	20	82	1	118	12	14	19	53	1.72
74121--74166	4	11.5	4	80	0	56	26	2	4	67	1.21
74337--74407	21	3.4	21	78	7	81	23	33	18	23	1.96
74336--74418	42	2.0	42	87	0	121	24	37	15	22	1.93
74357--74428	21	3.4	21	74	0	63	23	36	18	22	1.95
74335--74428	42	2.2	42	82	0	116	24	35	17	23	1.95
75785--75942	64	2.5	64	93	1	271	30	1	16	51	1.55
76036--76083	20	2.4	20	78	0	60	29	18	27	25	1.98
77267--77303	18	2.1	18	89	0	56	51	10	5	32	1.60
77674--77722	24	2.0	25	92	4	82	44	20	8	26	1.79
77811--77871	29	2.1	29	90	0	95	26	16	26	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80413--80466	24	2.2	24	90	0	81	42	16	16	24	1.88
81533--81632	20	5.1	20	83	7	116	20	38	28	14	1.91
81533--81632	40	2.5	40	88	6	150	20	38	28	14	1.91
81575--81633	21	2.9	20	82	5	82	16	37	28	16	1.92
82780--82827	19	2.5	20	86	3	71	54	4	12	29	1.56
84284--84336	20	2.8	19	88	5	72	24	30	30	15	1.95
84285--84358	21	3.8	20	82	7	80	18	32	31	17	1.95
85153--85302	19	7.7	20	87	5	184	30	11	23	34	1.90
85153--85299	58	2.5	60	84	8	187	30	11	23	34	1.90
85310--85356	19	2.4	20	82	7	60	25	14	29	29	1.95
85753--85809	26	2.2	26	84	12	73	47	8	1	42	1.45
85778--86009	33	7.2	33	81	12	275	41	5	6	46	1.52
85733--86009	66	4.4	65	79	11	281	43	5	5	45	1.49
85913--85971	26	2.3	26	93	0	100	38	6	8	45	1.61
85986--86029	22	2.0	22	86	0	61	50	2	2	45	1.27
86214--86274	29	2.1	30	93	3	106	42	9	4	42	1.59
91602--91634	13	2.4	14	95	5	59	45	0	0	54	0.99
92806--92867	18	3.2	20	78	19	62	61	0	1	37	1.06
92863--92927	24	2.5	25	80	16	71	56	1	0	41	1.08
92915--92971	19	2.9	19	78	14	62	66	1	0	31	1.02
99038--99093	3	17.7	3	78	10	58	37	0	5	57	1.22
99038--99093	10	5.5	10	83	12	69	37	0	5	57	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104884--104930	23	2.0	24	91	8	78	72	6	19	2	1.17
106941--106996	16	3.5	16	90	0	85	48	26	1	23	1.61
107351--107474	36	3.4	37	80	7	146	33	16	12	37	1.87
107351--107496	36	4.0	35	78	6	130	32	18	12	36	1.88
107446--107625	99	1.8	98	85	3	254	36	18	11	34	1.86
107640--107849	103	2.0	103	84	3	271	26	20	15	38	1.91
107706--107803	37	2.6	37	85	4	117	26	21	15	36	1.93
107881--107925	21	2.1	21	95	0	81	20	24	13	42	1.87
107742--107916	67	2.6	67	90	2	255	26	16	15	41	1.88
107745--108059	153	2.1	154	82	4	377	26	19	13	40	1.88
107815--107998	87	2.1	86	83	6	219	26	17	14	40	1.89
107899--108078	66	2.7	65	82	3	234	27	21	12	39	1.88
108080--108437	130	2.7	132	82	3	398	25	30	18	26	1.98
108619--108683	3	21.7	3	100	0	130	33	0	0	66	0.92
110500--110530	15	2.1	15	93	0	53	16	6	3	74	1.16
110792--110859	33	2.1	33	97	0	127	32	7	8	51	1.61
111670--111700	16	1.9	16	100	0	62	51	19	9	19	1.74
111754--111781	14	2.0	14	100	0	56	42	0	7	50	1.30
112861--113196	137	2.4	138	88	3	482	29	13	13	44	1.81
114773--114850	37	2.2	37	81	9	90	65	1	8	24	1.29
114807--114844	20	1.9	20	88	0	58	63	2	7	26	1.35
116113--116622	105	4.9	105	94	1	868	22	17	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
117192--117349	68	2.4	66	82	8	187	37	8	22	31	1.84
117193--117375	65	2.7	67	80	7	178	39	8	22	30	1.83
117325--117448	36	3.4	36	82	6	160	40	13	20	25	1.89
117943--117978	18	2.0	18	88	0	54	41	30	8	19	1.81
118405--118467	29	2.2	29	100	0	126	23	14	33	28	1.94
119053--119114	20	3.0	21	79	9	65	1	16	6	75	1.08
119071--119123	23	2.4	22	84	6	72	0	15	5	79	0.91
122366--122424	24	2.6	23	76	7	66	66	1	5	27	1.22
124782--124835	17	3.2	17	89	0	81	40	7	29	22	1.81
133652--133678	14	1.9	14	100	0	54	44	0	29	25	1.54

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   27   28   29   30   31