genome.fa.s8344.2.7.7.80.10.50.1000.1.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: VEPZ01008344.1 Hibiscus syriacus cultivar Beakdansim tig00111071_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  332991

Tables:   1   2   3   

This is table  1  of  3  ( 253 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)
5133--5184	28	1.9	26	88	7	77	34	17	11	36	1.86
8623--8661	19	2.1	19	95	0	69	17	17	5	58	1.56
10275--10327	5	9.8	5	76	15	52	7	22	50	18	1.72
10269--10328	17	3.2	17	79	20	75	11	23	46	18	1.81
10275--10327	22	2.4	22	100	0	106	7	22	50	18	1.72
10324--10401	9	8.3	9	80	5	75	28	28	26	16	1.97
10326--10402	19	4.1	19	79	12	86	28	28	24	18	1.98
17546--17576	7	4.4	7	100	0	62	25	29	29	16	1.96
17566--17630	22	3.0	22	93	0	112	10	23	46	20	1.81
17629--17726	19	5.1	19	80	13	101	28	27	26	17	1.98
17627--17725	9	10.3	9	80	10	90	28	27	28	16	1.97
17628--17725	29	3.4	28	85	5	124	28	27	27	16	1.97
27769--27832	29	2.2	29	97	0	119	32	17	4	45	1.69
28867--28896	2	15.0	2	100	0	60	50	0	0	50	1.00
32623--32936	32	10.6	32	82	14	376	53	13	0	32	1.40
32783--32857	22	3.2	23	71	17	73	56	17	0	26	1.42
32653--33082	54	7.8	54	78	13	302	53	13	0	33	1.40
32861--32903	22	2.0	22	100	0	86	51	13	0	34	1.42
32863--32911	22	2.2	22	88	3	71	55	14	0	30	1.40
32685--33037	134	2.6	134	93	4	580	52	14	0	33	1.41
32864--33117	80	3.4	76	87	6	333	53	12	0	34	1.38
32995--33055	22	2.8	22	97	0	113	52	13	0	34	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33036--33179	45	3.0	50	77	13	135	52	4	0	43	1.20
33062--33179	15	7.5	15	79	13	130	52	2	0	44	1.14
34310--34338	14	2.1	14	93	6	51	55	0	0	44	0.99
35676--35723	2	24.5	2	95	4	89	50	0	0	50	1.00
37562--38133	123	4.7	123	92	1	934	25	18	15	40	1.90
38130--38414	37	7.8	35	68	10	133	40	9	16	33	1.81
38130--38382	73	3.5	73	92	0	416	41	9	15	33	1.80
42975--43005	16	1.9	16	93	0	53	38	3	12	45	1.59
44752--44813	25	2.5	26	84	5	83	66	1	8	24	1.28
46253--46288	19	1.9	19	88	5	56	36	0	5	58	1.22
46515--46540	7	3.7	7	100	0	52	23	0	0	76	0.78
47204--47245	15	2.7	15	88	3	57	26	0	2	71	0.98
47212--47257	20	2.2	21	88	3	67	26	0	2	71	0.97
47220--47261	20	2.1	20	91	8	68	23	0	0	76	0.79
47509--47538	15	2.0	15	100	0	60	80	0	0	20	0.72
48603--48658	20	2.8	20	73	19	55	50	5	0	44	1.25
48957--49021	20	3.3	19	69	16	51	27	30	16	24	1.97
49022--49061	21	1.9	21	84	0	53	20	22	15	42	1.88
49059--49151	20	4.7	20	88	5	134	39	20	20	19	1.92
49059--49169	40	2.8	40	84	5	136	37	21	20	19	1.94
49696--49800	20	5.6	19	74	16	85	50	19	19	11	1.77
49696--49817	20	6.5	19	73	13	74	50	20	18	10	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49813--49930	19	6.1	19	85	3	137	14	21	19	44	1.86
50752--50946	95	2.0	96	99	1	383	32	6	12	48	1.65
51719--52091	94	4.1	94	92	2	564	21	12	19	46	1.82
51721--52087	187	2.0	182	89	3	556	21	12	18	47	1.81
52184--52245	20	3.2	20	83	4	90	51	16	22	9	1.73
52208--52345	33	3.9	33	82	8	141	48	26	18	6	1.72
52274--52351	20	3.9	20	96	0	147	50	29	16	3	1.63
52876--52942	21	3.2	21	66	6	55	23	35	19	20	1.95
54277--54313	14	2.6	14	95	0	65	35	0	21	43	1.53
54420--54466	19	2.5	19	92	0	85	44	19	21	14	1.86
54497--54588	19	5.4	18	68	24	74	11	23	18	45	1.83
54497--54588	33	2.8	33	96	0	166	11	23	18	45	1.83
54561--54610	20	2.5	20	81	9	59	16	20	24	40	1.91
57951--58030	20	4.1	20	88	3	119	35	18	18	27	1.95
58023--58073	21	2.4	21	100	0	102	13	17	15	52	1.74
57944--58105	20	8.0	21	82	4	111	28	18	17	35	1.94
58090--58132	21	2.0	21	86	4	59	37	16	25	20	1.93
60335--60366	15	2.1	16	94	5	57	62	0	0	37	0.95
61733--61779	23	2.1	23	84	7	62	42	0	4	53	1.20
62578--62616	19	2.1	19	85	9	53	43	0	2	53	1.14
63483--63517	16	2.1	17	89	5	54	40	8	2	48	1.49
65084--65507	157	2.7	153	83	3	517	30	15	12	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67464--67497	18	2.0	18	88	11	54	38	0	8	52	1.33
67738--67914	60	3.0	59	80	5	196	41	5	20	32	1.75
68421--68477	23	2.5	24	77	8	64	43	17	15	22	1.87
70370--70400	5	6.2	5	100	0	62	0	19	58	22	1.40
71515--71553	19	2.1	19	85	9	53	58	2	0	38	1.12
76291--76333	14	2.7	17	79	20	65	34	18	0	46	1.50
76553--76583	15	2.1	15	93	0	53	45	0	0	54	0.99
76715--76791	20	4.0	19	85	11	95	24	22	5	48	1.71
76726--76791	20	3.3	20	91	2	107	27	21	3	48	1.64
79050--79085	14	2.6	14	100	0	72	41	38	0	19	1.52
106007--106041	17	2.1	17	94	0	61	51	14	5	28	1.65
114133--114164	15	2.1	15	100	0	64	28	25	25	21	1.99
116784--116904	57	2.1	60	83	7	151	34	2	11	51	1.52
123524--123616	21	4.5	21	78	4	100	39	18	24	17	1.91
123524--123616	41	2.3	41	100	0	186	39	18	24	17	1.91
123543--123677	41	3.3	41	84	4	148	37	21	20	20	1.94
123605--123698	20	4.7	20	80	7	91	32	25	17	24	1.96
124216--124282	19	3.5	19	81	2	80	47	23	16	11	1.80
124278--124428	19	8.1	19	82	10	177	11	21	21	45	1.84
124278--124428	39	4.1	38	78	10	177	11	21	21	45	1.84
126431--126553	42	2.9	42	80	2	122	22	36	17	22	1.95
126487--126553	21	3.2	21	66	6	55	23	35	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
128185--128226	17	2.5	17	100	0	84	26	19	11	42	1.85
128665--128689	12	2.1	12	100	0	50	0	28	0	72	0.86
128864--128917	24	2.2	24	90	0	81	38	20	16	24	1.92
129954--130011	20	2.9	20	94	0	98	37	22	22	17	1.93
130035--130092	14	3.8	14	79	20	71	10	20	18	50	1.76
130017--130087	33	2.2	33	84	0	88	19	19	21	39	1.93
130030--130126	19	5.6	19	78	19	106	12	22	19	45	1.84
130030--130109	33	2.4	33	100	0	160	12	21	18	47	1.81
131374--131452	14	4.8	17	69	21	62	11	18	25	44	1.83
131374--131452	32	2.5	32	93	0	140	11	18	25	44	1.83
131426--131490	20	3.4	19	81	6	78	15	23	24	36	1.93
131963--132007	18	2.5	18	85	0	63	11	15	46	26	1.79
133542--133585	22	2.0	22	95	0	79	18	15	45	20	1.85
133753--133866	20	5.7	20	77	10	90	25	16	24	33	1.96
133855--133930	21	3.7	21	80	3	100	15	25	18	40	1.90
133794--133928	41	3.3	41	84	4	148	20	20	21	37	1.94
133855--133947	20	4.6	20	77	4	87	17	23	18	40	1.90
133855--133947	41	2.3	41	98	0	177	17	23	18	40	1.90
148323--148454	39	3.4	38	78	9	126	45	0	17	36	1.54
150074--150119	15	3.3	15	73	17	53	54	8	17	19	1.68
150066--150119	27	2.0	27	96	0	99	50	11	18	20	1.77
150073--150130	26	2.2	27	87	3	82	53	12	15	18	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
148506--151988	902	3.7	917	89	5	4988	34	17	18	29	1.94
154960--154986	14	1.9	14	100	0	54	66	0	3	29	1.09
156101--156147	20	2.3	21	88	3	78	55	10	17	17	1.69
156278--156320	20	2.3	19	88	11	63	51	11	16	20	1.75
158548--158612	21	3.1	21	80	6	69	40	15	29	15	1.88
158646--158711	33	2.0	33	90	0	105	28	0	48	22	1.51
159093--159157	21	3.1	21	80	6	69	40	15	29	15	1.88
159191--159256	33	2.0	33	90	0	105	28	0	48	22	1.51
159637--159700	21	3.1	21	77	8	60	39	15	29	15	1.89
158540--160173	545	3.0	545	99	0	3217	37	7	33	21	1.82

Tables:   1   2   3