genome.fa.s2273.2.7.7.80.10.50.1000.1.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: VEPZ01002273.1 Hibiscus syriacus cultivar Beakdansim tig00004620_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  802197

Tables:   1   2   3   4   

This is table  1  of  4  ( 367 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)
625--692	36	1.9	35	85	8	93	51	1	8	38	1.42
657--810	80	1.9	82	88	8	239	50	1	6	40	1.39
1399--1433	12	2.8	12	86	4	52	80	2	2	14	0.95
3594--4023	226	1.9	218	89	7	670	45	7	7	38	1.63
4089--4134	20	2.3	19	85	10	65	56	10	15	17	1.67
8389--8437	19	2.6	19	93	0	80	30	2	10	57	1.43
8556--10107	198	7.9	198	96	2	2853	36	15	16	30	1.91
8550--10107	392	4.0	396	97	1	2890	36	15	16	30	1.91
11569--11621	12	4.4	12	92	0	70	35	7	33	22	1.83
11581--11634	3	18.0	3	84	0	72	37	3	33	25	1.74
11566--11634	18	4.0	18	79	11	72	37	5	33	23	1.79
11577--11634	12	4.8	12	93	0	80	36	5	32	25	1.78
13052--13755	183	3.9	182	95	1	1234	35	14	16	33	1.89
13077--13755	362	1.9	365	95	1	1240	34	14	16	33	1.89
15733--15757	13	1.9	13	100	0	50	80	0	4	16	0.87
16305--16371	26	2.6	26	95	0	116	23	23	31	20	1.98
17850--18493	55	11.7	55	90	2	940	28	25	15	30	1.96
19496--19548	8	7.4	8	74	23	55	13	9	0	77	0.99
19511--19548	15	2.5	15	86	0	58	13	7	0	78	0.94
19496--19575	40	2.0	41	85	9	110	11	13	0	75	1.06
31206--31230	13	1.9	13	100	0	50	80	0	4	16	0.87
31773--31839	26	2.6	26	95	0	116	23	23	31	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34533--34596	25	2.6	25	77	2	76	35	9	14	40	1.78
34932--34995	23	2.8	23	87	0	92	35	6	20	37	1.78
34932--35004	23	3.2	23	82	7	85	34	5	20	39	1.76
35269--35318	25	2.0	24	92	3	82	32	8	20	40	1.81
35705--35741	18	2.1	18	89	0	56	32	5	10	51	1.60
35697--35743	24	2.0	24	86	0	67	34	4	14	46	1.64
35997--36083	39	2.2	39	95	0	156	48	20	13	17	1.81
36415--36457	22	1.9	23	85	4	61	51	4	6	37	1.50
36484--36556	23	3.2	23	84	0	92	36	4	19	39	1.71
36599--37264	330	2.0	326	96	2	1154	42	7	10	38	1.69
39303--39350	21	2.2	23	85	7	64	39	0	0	60	0.97
39318--39351	16	2.1	16	89	10	52	38	0	0	61	0.96
43597--43692	45	2.1	45	90	0	147	25	16	11	46	1.80
50469--50525	30	2.0	28	86	6	78	29	8	14	47	1.74
50593--50661	20	3.5	20	70	7	68	39	24	18	17	1.92
50707--50773	19	3.5	19	95	0	116	19	16	14	49	1.80
50688--50784	38	2.8	33	75	14	104	16	18	17	47	1.83
52811--52864	20	2.7	20	88	0	81	37	24	24	14	1.93
52868--52957	14	5.8	14	71	21	72	47	22	17	12	1.80
52851--52973	33	3.8	33	91	2	194	46	23	17	12	1.82
52851--52973	65	1.9	66	89	5	196	46	23	17	12	1.82
52969--53029	19	3.5	18	74	21	67	13	22	19	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53017--53060	20	2.2	20	84	4	54	20	25	18	36	1.95
53553--53597	18	2.5	18	88	0	72	13	15	44	26	1.83
54917--54990	20	3.8	20	81	1	69	43	22	17	16	1.88
55454--55565	20	5.6	20	82	9	84	24	19	24	32	1.98
55434--55571	61	2.3	61	84	0	186	24	18	22	34	1.96
55454--55589	61	2.2	61	80	2	148	23	20	22	33	1.97
62320--62370	26	2.0	26	96	0	93	45	7	21	25	1.79
70707--70755	13	3.8	13	86	5	73	16	53	18	12	1.73
70855--70909	24	2.3	24	90	0	83	25	47	14	12	1.80
70855--70909	12	4.6	12	81	0	65	25	47	14	12	1.80
78425--78461	15	2.4	15	90	4	56	37	2	2	56	1.28
78882--78933	22	2.4	22	93	0	86	36	9	25	28	1.87
82426--82455	16	1.9	15	93	6	51	26	0	6	66	1.16
90696--90741	19	2.4	19	86	13	60	50	0	4	45	1.21
93373--93459	16	5.4	16	87	0	120	19	25	13	41	1.88
93690--93727	14	2.7	14	91	0	58	44	0	5	50	1.24
96947--97003	24	2.4	24	85	5	71	59	10	10	19	1.59
98255--98403	62	2.4	61	81	4	165	34	7	4	53	1.50
98450--98568	33	3.8	33	74	18	137	42	5	6	45	1.55
98510--98586	18	4.4	18	76	15	81	42	6	6	44	1.56
98429--98631	51	3.6	56	81	12	236	42	5	5	45	1.51
98560--98643	33	2.5	33	90	0	132	42	5	7	44	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
98680--98750	2	33.0	2	73	18	54	47	2	5	43	1.41
98685--98748	9	6.7	9	71	25	51	48	1	6	43	1.37
98680--98750	20	3.5	19	81	9	79	47	2	5	43	1.41
98675--98751	29	2.6	29	80	10	77	48	2	6	42	1.42
98731--98819	29	3.3	29	68	26	95	43	8	10	37	1.70
98675--98828	51	3.0	51	88	4	206	44	5	8	40	1.59
98737--98822	20	4.8	18	69	23	58	43	8	11	37	1.71
98920--98982	22	2.9	22	97	0	117	50	6	0	42	1.27
99035--99066	11	2.9	11	90	0	55	46	3	0	50	1.17
99108--99238	25	5.2	26	75	18	82	41	4	5	48	1.46
99158--99238	2	41.0	2	73	16	62	45	3	2	48	1.33
99150--99238	9	9.8	9	72	10	65	46	4	2	47	1.35
99158--99236	22	3.8	21	73	24	69	45	3	2	48	1.34
102514--102585	29	2.5	29	90	0	108	38	9	13	37	1.78
102600--102676	30	2.5	30	91	2	118	40	5	23	31	1.76
102887--102945	22	2.6	23	94	2	102	18	27	30	23	1.98
109395--109466	29	2.5	29	93	0	117	38	8	13	38	1.75
109481--109557	30	2.5	30	91	2	118	40	5	23	31	1.76
109768--109826	22	2.6	23	91	2	93	20	27	28	23	1.99
109768--109834	22	3.0	23	88	2	73	20	25	26	26	1.99
115962--116030	23	3.0	23	80	0	84	21	26	24	27	1.99
116790--117578	207	3.8	206	85	8	1040	29	11	8	50	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
125089--125151	24	2.6	24	87	5	83	11	11	19	58	1.61
126127--126201	16	5.1	16	75	15	81	9	12	21	57	1.62
126266--126298	16	2.1	16	100	0	66	6	12	24	57	1.57
131318--131342	1	25.0	1	100	0	50	0	0	100	0	0.00
138128--138161	17	1.9	17	88	5	50	67	5	8	17	1.37
151612--151699	42	2.1	42	91	4	142	46	11	21	20	1.82
155185--155279	46	2.1	46	100	0	190	35	14	22	27	1.93
157010--157035	2	13.0	2	100	0	52	50	0	0	50	1.00
160894--160928	18	1.9	18	88	0	52	28	17	0	54	1.43
162224--162260	19	1.9	19	94	0	65	5	29	43	21	1.75
162229--162267	19	2.1	19	90	0	60	7	35	38	17	1.79
162275--162360	22	3.9	22	72	6	84	6	30	36	26	1.83
162271--162360	9	9.7	9	71	15	58	6	31	36	25	1.82
162271--162336	13	5.0	13	76	9	53	7	31	36	24	1.83
168015--168054	20	2.1	19	90	4	62	60	2	0	37	1.11
169991--170035	13	3.4	13	80	17	56	46	0	8	44	1.34
169996--170047	25	2.0	27	85	7	72	51	0	9	38	1.35
175894--175986	21	4.5	21	78	4	100	39	18	24	17	1.91
175894--175986	41	2.3	41	100	0	186	39	18	24	17	1.91
175913--176047	41	3.3	41	82	6	132	38	20	21	19	1.94
175975--176069	20	4.7	20	80	2	91	34	24	17	23	1.96
176257--176300	22	2.0	22	95	0	79	20	45	15	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
176418--176444	14	1.9	14	100	0	54	3	14	29	51	1.60
176443--176500	14	3.9	14	79	16	71	8	17	25	48	1.75
176428--176516	32	2.7	32	89	3	133	10	17	25	46	1.80
176438--176516	32	2.4	33	95	2	142	10	18	24	46	1.80
176457--176574	20	6.4	19	77	11	95	13	20	24	41	1.88
178522--178623	38	2.8	36	85	8	120	43	19	22	14	1.88
178551--178623	19	3.8	19	100	0	146	46	16	21	15	1.83
178623--178680	20	2.9	20	94	0	98	17	22	22	37	1.93
179740--179793	24	2.2	24	90	0	81	24	16	20	38	1.92
179968--179992	12	2.1	12	100	0	50	72	0	28	0	0.86

Tables:   1   2   3   4