genome.fa.s8296.2.7.7.80.10.50.1000.1.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: VEPZ01008296.1 Hibiscus syriacus cultivar Beakdansim tig00110963_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1205179

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 780 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)
3210--3640	227	1.9	217	88	7	652	44	8	7	39	1.62
3709--3753	19	2.3	19	88	3	72	53	11	17	17	1.72
3882--3924	20	2.3	19	88	11	63	51	11	16	20	1.75
8019--8065	24	2.0	24	91	8	78	31	2	8	57	1.41
8183--9331	194	5.9	198	93	5	1932	36	15	16	30	1.90
8183--9331	389	2.9	390	92	4	1916	36	15	16	30	1.90
9292--9343	21	2.3	23	70	12	54	38	9	13	38	1.77
10772--10833	18	3.4	18	79	0	79	37	9	35	17	1.83
10772--10863	6	15.3	6	79	0	67	36	7	34	20	1.81
10787--10867	3	27.0	3	75	0	72	35	6	34	23	1.80
10775--10851	36	2.1	36	90	0	118	35	9	35	20	1.85
10775--10863	12	7.4	12	84	0	88	35	7	34	21	1.82
10772--10863	18	5.1	18	77	0	76	36	7	34	20	1.81
12356--13203	182	4.7	183	94	2	1450	34	15	16	33	1.90
14268--14380	23	5.1	23	83	9	146	35	5	17	41	1.72
14242--14380	46	3.2	46	83	14	190	35	5	18	40	1.75
14804--14840	18	2.1	18	89	0	56	32	5	10	51	1.60
14796--14842	24	2.0	24	86	0	67	34	4	14	46	1.64
15096--15182	39	2.2	39	89	0	138	48	18	13	19	1.81
15590--15646	23	2.6	23	86	5	82	33	5	22	38	1.77
15590--15654	23	2.9	22	86	6	69	30	4	23	41	1.74
15999--16061	23	2.8	22	85	2	81	34	4	20	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16071--16107	19	1.9	19	88	0	56	27	16	10	45	1.80
15392--16407	416	2.5	417	92	6	1702	41	7	12	39	1.71
18235--18263	10	2.9	10	100	0	58	0	6	41	51	1.28
19716--19753	17	2.2	18	86	13	53	60	0	0	39	0.97
25347--25817	224	2.1	224	98	0	917	39	13	16	30	1.87
26931--27075	71	2.0	71	100	0	290	26	20	19	33	1.97
33728--33792	31	2.1	31	94	0	112	29	12	15	43	1.83
42337--42402	21	3.4	21	66	23	63	45	18	4	31	1.69
43078--43105	2	14.0	2	100	0	56	50	0	0	50	1.00
56747--56788	18	2.3	18	100	0	84	23	23	21	30	1.99
58118--58150	2	16.5	2	100	0	66	51	0	0	48	1.00
58376--58450	30	2.5	30	78	10	82	42	1	6	49	1.37
61204--61243	17	2.2	18	86	8	55	40	7	0	52	1.30
61263--61324	33	1.9	32	83	3	79	16	12	25	45	1.83
69636--69676	20	2.0	20	100	0	82	29	26	9	34	1.88
78041--78077	13	2.8	13	100	0	74	13	56	16	13	1.67
78095--78180	32	2.7	33	81	5	113	51	0	0	48	1.00
78196--78221	12	2.2	12	100	0	52	23	50	19	7	1.73
81313--81408	47	2.0	47	100	0	192	31	18	32	17	1.95
86488--86531	13	3.4	13	75	12	54	45	0	0	54	0.99
86478--86532	26	2.1	26	100	0	110	45	0	0	54	0.99
88486--88518	14	2.4	14	90	10	50	48	18	0	33	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89082--89170	2	44.5	2	100	0	178	49	0	0	50	1.00
89484--89531	23	2.1	23	84	0	60	43	8	10	37	1.69
89627--90336	200	3.5	198	80	8	695	30	15	14	39	1.88
92788--93143	177	2.0	177	91	1	570	30	16	14	38	1.89
96153--96206	25	2.2	25	86	3	74	20	24	24	31	1.98
98758--98797	6	6.7	6	91	0	53	22	32	2	42	1.67
100611--100663	21	2.5	21	93	0	97	35	13	5	45	1.67
100409--101259	200	4.0	218	89	4	1053	31	15	15	37	1.89
100632--101259	200	3.1	200	93	1	1055	30	16	15	37	1.90
100281--101259	421	2.4	405	89	5	1488	31	15	14	37	1.89
101502--101550	19	2.6	19	93	0	80	53	12	2	32	1.50
102125--102293	4	42.2	4	100	0	338	49	25	0	24	1.50
103010--103075	33	2.0	33	90	0	105	22	45	0	31	1.53
105547--105604	20	2.9	19	73	9	53	18	13	10	56	1.65
105391--105804	182	2.3	182	89	3	620	27	15	13	43	1.84
108205--108238	9	3.7	9	92	4	50	0	23	2	73	0.97
117123--117201	28	3.0	26	70	14	70	43	5	10	41	1.60
117716--117761	24	1.9	24	82	8	58	39	19	8	32	1.82
118710--118808	49	2.0	49	100	0	198	32	12	10	45	1.75
119601--119626	13	2.0	13	100	0	52	38	38	0	23	1.55
124257--124287	16	1.9	16	93	0	53	19	12	19	48	1.81
124487--124520	18	1.9	17	88	5	50	14	23	32	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
124864--124958	21	4.6	21	80	2	111	24	17	26	31	1.97
124906--124978	20	3.6	20	70	3	74	16	21	24	36	1.94
124885--124981	41	2.4	41	94	0	167	20	19	24	35	1.96
125006--125031	13	2.0	13	100	0	52	30	15	23	30	1.95
125632--125685	6	9.0	6	100	0	108	0	16	50	33	1.46
125830--125876	25	1.9	24	91	4	76	38	21	23	17	1.93
125855--125936	41	2.0	41	90	4	130	36	24	21	17	1.94
125859--125940	21	4.0	21	76	6	78	35	26	20	17	1.95
128187--128286	49	2.0	49	96	0	182	37	7	15	41	1.74
129883--129942	23	2.6	23	78	0	66	38	23	11	26	1.89
131132--131200	29	2.4	29	100	0	138	28	28	13	28	1.94
131228--131338	51	2.2	51	85	3	143	17	31	29	21	1.96
140507--140580	25	2.9	25	72	9	69	37	2	2	56	1.28
140900--140941	2	21.5	2	95	4	77	50	0	50	0	1.00
149390--149460	29	2.4	29	100	0	142	23	39	25	11	1.88
149683--149708	13	2.0	13	100	0	52	30	23	38	7	1.83
149837--149872	11	3.2	11	84	7	54	22	22	19	36	1.95
150182--150234	28	1.9	27	88	3	79	32	1	16	49	1.57
150181--150245	27	2.3	29	82	10	82	36	1	15	46	1.55
150443--150482	21	1.9	21	100	0	80	27	0	15	57	1.38
150663--150788	30	4.4	30	75	21	103	42	1	10	46	1.47
150679--150788	30	4.0	29	76	22	105	44	1	9	44	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
150732--150780	22	2.2	22	92	0	80	46	2	12	38	1.53
152062--152106	23	2.0	23	86	0	63	40	2	2	55	1.24
152056--152106	23	2.5	20	77	20	52	39	1	1	56	1.22
153097--153218	60	2.0	60	96	0	226	45	12	0	40	1.47
153152--153687	49	10.3	49	85	13	718	46	12	0	41	1.41
153099--153954	109	8.1	108	83	13	1102	46	12	0	41	1.43
153152--153902	98	7.3	98	85	12	1017	46	12	0	41	1.41
153310--153902	49	12.6	49	80	10	573	46	12	0	41	1.41
153168--153954	158	5.0	161	85	10	914	46	12	0	41	1.41
153454--153955	49	9.1	59	80	15	607	46	12	0	40	1.42
153560--153589	10	3.0	10	95	0	51	40	13	0	46	1.43
153692--153768	21	3.3	21	66	27	57	50	10	0	38	1.37
153454--153954	207	2.3	210	89	7	731	46	12	0	40	1.42
153878--153958	21	4.0	20	67	23	62	46	13	0	39	1.43
153829--153955	60	2.1	59	88	2	200	46	13	0	40	1.43
156998--157051	28	1.9	28	96	0	99	57	12	1	27	1.46
157028--157076	21	2.3	21	82	3	62	55	16	0	28	1.42
156994--157058	28	2.3	28	84	10	96	55	10	1	32	1.44
157726--157856	29	4.4	29	74	7	109	16	25	34	22	1.95
158054--158084	2	15.5	2	93	0	53	45	0	0	54	0.99
169757--169785	3	9.7	3	100	0	58	34	0	0	65	0.93
171343--171392	26	2.0	25	92	4	82	52	0	6	42	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
172364--172393	15	1.9	16	93	6	53	23	0	13	63	1.29
173070--173101	17	1.9	17	93	6	57	31	0	3	65	1.08
173661--173705	23	2.0	23	90	0	72	40	8	15	35	1.79
173621--173783	87	1.9	87	93	0	281	40	11	13	34	1.81
173803--174495	201	3.4	201	81	5	740	30	16	14	39	1.88
177674--177747	24	3.3	22	88	7	80	12	9	21	56	1.63
177682--177761	24	3.3	24	89	0	124	12	8	18	60	1.58
177692--177740	14	3.8	13	74	20	50	10	10	22	57	1.62
178828--178886	16	3.7	16	90	0	91	8	15	20	55	1.65
179233--180163	200	4.7	200	86	0	1265	31	15	14	38	1.87

Tables:   1   2   3   4   5   6   7