genome.fa.s7823.2.7.7.80.10.50.1000.1.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   32   
          33   

This is table  1  of  33  ( 3920 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)
2471--2501	16	1.9	16	93	0	53	38	3	12	45	1.59
3907--3945	15	2.6	15	83	0	51	48	5	10	35	1.59
11615--11639	13	1.9	13	100	0	50	52	0	0	48	1.00
13696--14087	185	2.1	186	91	0	635	42	3	8	46	1.49
14662--14695	2	17.0	2	87	0	50	44	0	5	50	1.26
19636--19738	36	2.9	35	88	8	113	50	2	25	21	1.62
19651--19813	45	4.1	39	86	12	233	50	2	24	22	1.61
20661--20749	31	3.0	30	90	4	144	35	11	13	39	1.80
26027--26091	21	3.1	21	77	6	60	41	15	27	15	1.87
26125--26190	33	2.0	33	90	0	105	28	0	48	22	1.51
27980--28028	19	2.6	19	93	0	80	30	2	10	57	1.43
28147--29710	199	7.9	199	97	1	2935	36	15	16	31	1.90
28147--29710	592	2.6	594	97	1	2920	36	15	16	31	1.90
28147--29710	396	3.9	398	97	1	2935	36	15	16	31	1.90
31171--31232	18	3.4	18	79	0	79	37	9	35	17	1.83
31171--31262	6	15.3	6	79	0	67	36	7	34	20	1.81
31186--31266	3	27.0	3	75	0	72	35	6	34	23	1.80
31174--31250	36	2.1	36	90	0	118	35	9	35	20	1.85
31174--31262	12	7.4	12	84	0	88	35	7	34	21	1.82
31171--31262	18	5.1	18	77	0	76	36	7	34	20	1.81
32641--32685	22	2.0	22	83	8	56	42	11	8	37	1.72
32717--33217	183	2.7	183	96	0	921	35	14	15	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35687--35751	25	2.6	25	80	0	85	35	9	13	41	1.77
36115--36166	23	2.3	23	90	6	79	34	1	19	44	1.62
36434--36484	25	2.0	25	92	0	84	33	7	19	39	1.81
36873--36909	18	2.1	18	89	0	56	32	5	10	51	1.60
36865--36911	24	2.0	24	86	0	67	34	4	14	46	1.64
37168--37254	39	2.2	39	93	0	147	49	19	13	17	1.79
37655--37727	23	3.2	23	88	0	101	34	4	21	39	1.73
37772--38432	329	2.0	329	96	1	1234	42	7	11	38	1.70
39844--39872	12	2.3	13	94	5	51	68	0	0	31	0.89
39962--39996	14	2.4	15	90	4	54	74	0	0	25	0.82
40189--40246	21	3.0	21	85	9	70	20	22	18	37	1.94
40212--40246	17	2.0	18	94	5	63	22	25	17	34	1.96
40243--40328	20	4.3	20	91	1	138	40	24	15	19	1.90
40378--40450	20	3.6	21	79	5	87	36	19	9	34	1.84
40370--40449	41	2.0	40	82	2	97	35	20	10	35	1.86
43987--44061	20	3.8	20	74	0	78	20	20	20	40	1.92
44183--44231	25	2.0	25	95	0	89	26	8	20	44	1.79
44598--44655	30	1.9	30	82	6	73	29	3	17	50	1.62
44609--44659	24	2.1	24	88	0	75	31	3	17	47	1.66
46019--46065	20	2.3	20	77	0	67	31	21	25	21	1.98
46117--46182	20	3.3	20	82	0	87	22	22	24	30	1.99
46241--46391	64	2.4	64	89	1	232	53	17	0	28	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46370--46402	13	2.4	14	95	5	59	48	21	0	30	1.50
47772--47870	21	4.7	21	82	3	119	25	19	34	21	1.96
47765--47870	42	2.5	42	87	0	149	25	17	36	19	1.94
48170--48219	21	2.4	21	77	12	50	36	30	14	20	1.91
48236--48285	21	2.4	21	82	0	64	32	32	14	22	1.93
49962--50027	19	3.4	20	87	6	100	48	21	18	12	1.80
50532--50569	20	2.0	20	84	5	51	44	13	15	26	1.83
54963--55000	14	2.7	14	88	8	51	68	10	5	15	1.36
55216--55265	22	2.3	23	80	16	61	48	4	4	44	1.40
55245--55468	33	7.0	32	80	11	248	45	4	5	44	1.46
55232--55390	26	6.5	26	75	17	96	47	4	5	42	1.47
55300--55355	17	3.4	17	71	14	53	46	1	3	48	1.30
55300--55464	59	2.7	59	83	7	177	46	4	5	44	1.46
55206--55482	92	3.0	90	82	8	276	45	3	6	44	1.46
55440--55510	30	2.5	29	82	8	85	46	1	2	49	1.25
55477--55520	20	2.2	20	87	4	61	40	2	4	52	1.34
55440--55528	26	3.3	26	76	11	81	43	2	3	50	1.31
55579--55610	2	16.5	2	93	6	57	46	0	0	53	1.00
55671--55726	27	2.1	27	93	0	94	37	7	7	48	1.58
55678--55738	27	2.3	27	88	5	88	37	8	8	45	1.64
55848--55915	9	7.6	9	79	9	52	52	5	1	39	1.34
55856--55920	2	31.0	2	75	20	53	50	6	1	41	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55848--55915	11	6.3	11	80	16	79	52	5	1	39	1.34
55876--55920	23	1.9	24	90	4	74	53	4	0	42	1.21
56445--56477	4	8.2	4	87	12	50	24	0	0	75	0.80
56690--56733	15	2.9	15	82	0	61	45	6	11	36	1.67
56841--56876	18	2.0	18	88	0	54	44	16	0	38	1.48
57393--57467	20	3.8	21	76	15	70	46	2	0	50	1.15
57396--57456	21	3.3	17	70	18	50	45	1	0	52	1.10
57560--57590	16	1.9	16	93	0	53	48	6	16	29	1.70
57626--57656	16	1.9	16	100	0	62	41	12	25	19	1.87
59475--59531	15	3.7	15	72	9	60	22	33	26	17	1.96
61029--61058	2	15.0	2	100	0	60	50	0	0	50	1.00
61397--61434	15	2.6	15	87	4	51	7	13	13	65	1.46
65444--65469	12	2.2	12	100	0	52	30	0	26	42	1.56
65986--66015	15	2.0	15	100	0	60	53	20	6	20	1.67
71909--71943	2	18.0	2	94	5	63	48	0	0	51	1.00
75025--75334	49	6.4	49	83	1	372	38	22	13	25	1.91
75025--75334	98	3.2	97	85	1	424	38	22	13	25	1.91
75024--75334	147	2.1	146	86	1	417	38	22	13	25	1.90
99650--99681	10	3.1	11	91	8	50	53	0	0	46	1.00
100672--100705	2	17.0	2	100	0	68	50	0	0	50	1.00
100681--100745	10	6.2	10	82	10	58	36	0	1	61	1.05
100672--100742	6	12.3	6	84	11	51	39	0	1	59	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100903--100934	11	2.8	12	86	13	50	59	0	0	40	0.97
104386--104433	22	2.2	22	82	14	55	68	2	4	25	1.18
104578--104613	2	18.0	2	100	0	72	50	0	0	50	1.00
104766--104818	26	2.0	26	88	3	79	22	15	15	47	1.82
105384--105413	15	2.0	15	100	0	60	13	13	13	60	1.60
107989--108038	26	1.9	26	88	8	75	30	16	26	28	1.96
113503--113591	3	29.0	3	84	4	106	39	0	1	59	1.05
114968--115008	13	3.1	13	82	6	55	41	2	0	56	1.13
118995--119026	15	2.1	15	94	0	55	25	18	9	46	1.79
126328--126371	4	10.8	4	85	9	54	81	0	18	0	0.68
126321--126382	16	3.7	16	81	16	72	80	0	19	0	0.71
126321--126382	17	3.6	17	83	12	74	80	0	19	0	0.71
126324--126382	21	2.7	22	80	15	77	81	0	18	0	0.69
127803--128113	93	3.3	94	91	1	500	34	12	18	34	1.88
132625--132669	24	1.9	23	82	13	56	48	6	26	17	1.72
132465--133235	113	6.8	113	90	2	1149	37	14	19	28	1.91
132851--132895	24	1.9	23	82	13	56	48	6	26	17	1.72
133075--133120	24	2.0	23	83	12	58	50	6	26	17	1.70
133177--133305	36	3.5	36	92	6	199	48	10	21	19	1.78
133062--133413	182	1.9	186	85	6	486	43	12	18	25	1.85
133650--133747	3	32.0	3	85	4	88	43	0	0	56	0.99
135126--135166	13	3.1	13	82	6	55	41	2	0	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
141038--141092	21	2.7	21	83	10	69	61	0	1	36	1.06
141588--141660	29	2.6	28	81	12	71	50	13	4	31	1.60
141902--141970	35	1.9	36	94	2	122	49	11	5	33	1.63
142702--142806	16	6.4	16	69	20	67	76	1	2	19	1.01
142705--142787	8	10.5	8	73	15	57	75	2	2	19	1.02
142703--142806	24	4.3	23	74	16	77	76	1	2	18	1.00
142705--142804	32	3.1	30	76	13	94	76	2	3	19	1.02
142765--142804	15	2.4	16	88	12	55	75	0	5	20	0.99
144600--144879	84	3.3	84	82	3	321	25	19	21	33	1.97
144561--144879	168	1.9	169	83	5	414	26	18	21	32	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   25   26   27   28   29   30   31   32   
          33