genome.fa.s3885.2.7.7.80.10.50.1000.1.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: VEPZ01003885.1 Hibiscus syriacus cultivar Beakdansim tig00008386_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  757743

Tables:   1   2   3   4   

This is table  1  of  4  ( 455 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)
988--1017	7	4.3	7	100	0	60	40	0	0	60	0.97
2896--2937	21	2.0	21	86	9	59	66	2	4	26	1.23
4339--4673	37	9.3	37	74	13	245	44	6	4	44	1.51
4384--4640	69	3.7	69	81	9	272	43	7	5	43	1.55
4739--4775	19	1.9	19	88	0	56	45	2	8	43	1.47
5383--6088	165	4.3	161	82	6	707	24	21	25	29	1.99
5388--6066	249	2.7	246	86	4	916	24	21	25	29	1.99
9413--9457	19	2.4	19	88	3	65	66	11	13	8	1.44
10080--10112	17	1.9	17	93	0	57	72	9	12	6	1.26
11060--11084	12	2.1	12	100	0	50	60	0	0	40	0.97
12547--12605	5	11.4	5	79	13	50	74	1	0	23	0.91
12558--12608	3	17.0	3	80	8	59	74	0	0	25	0.82
12532--12605	22	3.4	22	78	15	66	72	2	2	21	1.09
12535--12608	12	6.2	12	81	10	64	72	1	2	22	1.04
12560--12608	19	2.7	19	84	6	66	75	0	0	24	0.80
12585--12745	36	4.3	39	81	6	109	50	5	1	41	1.36
12602--12946	39	9.3	37	77	11	282	45	6	4	43	1.50
12649--12915	72	3.7	70	83	11	278	44	7	5	43	1.54
12649--12946	37	8.1	38	76	15	254	43	6	5	44	1.52
12947--12993	24	2.0	24	95	0	85	46	6	2	44	1.40
12947--13024	24	2.8	28	83	12	83	44	5	5	44	1.48
15878--15946	12	5.9	11	81	8	75	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15890--15949	3	20.3	3	82	3	77	58	0	0	41	0.98
15878--15953	15	5.0	15	75	19	68	56	0	0	43	0.99
16126--16871	76	9.9	75	92	2	1190	35	21	20	22	1.96
16120--16871	151	5.0	152	94	1	1237	35	21	20	22	1.96
17550--17626	22	3.5	22	87	0	118	38	11	11	37	1.78
22151--22184	12	2.8	12	90	4	50	0	11	0	88	0.52
22151--22177	13	2.1	13	100	0	54	0	7	0	92	0.38
22153--22188	14	2.4	16	86	13	51	0	13	0	86	0.58
22482--22533	2	26.0	2	100	0	104	50	0	0	50	1.00
24763--24804	7	5.9	7	78	15	50	57	9	16	16	1.65
26885--26937	20	2.6	22	77	11	60	66	0	7	26	1.18
29037--29107	3	24.3	3	82	5	92	59	0	0	40	0.98
29025--29111	15	6.0	15	68	29	64	57	0	0	42	0.98
32364--32469	39	2.7	40	76	11	112	37	15	1	45	1.57
32504--32553	26	2.0	25	84	7	66	32	2	4	62	1.25
32644--32670	2	13.5	2	100	0	54	48	0	0	51	1.00
32892--32926	2	17.5	2	100	0	70	48	0	0	51	1.00
50681--50708	2	14.0	2	100	0	56	50	0	0	50	1.00
57680--57723	20	2.3	19	85	11	63	20	25	9	45	1.80
57686--57723	20	1.9	20	94	0	67	21	23	10	44	1.83
65589--65616	14	2.0	14	100	0	56	7	42	0	50	1.30
66295--66349	2	27.5	2	100	0	110	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67328--67432	45	2.3	46	85	4	151	28	16	17	38	1.91
67977--68006	13	2.3	13	94	0	51	73	0	26	0	0.84
72083--72140	21	2.9	21	83	14	70	44	0	1	53	1.10
72100--72172	26	3.3	21	77	21	69	50	0	0	49	1.00
72101--72162	32	1.9	33	83	9	83	53	0	0	46	1.00
84449--84514	30	2.2	30	88	0	96	10	31	24	33	1.89
89004--89059	27	2.1	27	82	0	67	37	23	8	30	1.85
89899--89931	14	2.4	14	85	5	50	66	0	0	33	0.92
89994--90031	15	2.4	16	86	4	51	68	0	7	23	1.16
90325--90393	33	2.1	33	86	0	93	31	8	13	46	1.73
90442--90507	3	22.3	3	79	17	68	68	0	0	31	0.90
90892--91539	84	7.7	84	82	3	804	24	18	25	30	1.98
90848--91539	248	2.8	250	84	4	851	24	19	25	30	1.98
91641--92182	110	5.0	110	90	2	825	23	18	23	34	1.96
93018--93203	95	2.0	94	89	3	284	30	17	19	33	1.95
95895--95931	14	2.6	14	86	0	56	67	0	0	32	0.91
95886--95977	35	2.7	32	79	17	103	68	1	2	28	1.08
96443--96512	3	23.7	3	78	16	67	67	0	0	32	0.91
96443--96512	34	2.2	31	85	12	88	67	0	0	32	0.91
96442--96517	14	5.4	14	73	21	54	65	1	0	32	1.01
96617--96661	25	1.9	23	82	13	56	60	6	6	26	1.47
96621--96667	24	1.9	25	82	4	60	61	6	6	25	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
98683--98743	32	1.9	32	86	0	86	19	16	32	31	1.94
100240--100292	2	26.5	2	100	0	106	50	0	0	49	1.00
102306--102331	5	5.2	5	100	0	52	0	0	42	57	0.98
104378--104769	41	9.6	39	69	11	110	30	18	18	33	1.95
104635--104769	42	3.2	42	72	10	114	28	20	19	31	1.97
104367--104766	81	4.9	84	80	8	405	30	18	18	33	1.94
108363--108483	43	2.8	43	86	5	156	28	17	20	33	1.95
114242--114281	19	2.0	20	86	13	57	7	32	0	60	1.25
116336--116371	18	2.0	18	88	0	54	30	8	16	44	1.77
117529--117598	18	3.7	18	76	14	77	20	25	31	22	1.98
118490--118553	21	3.0	21	84	4	83	26	25	21	26	2.00
119067--119112	22	2.1	22	95	0	83	19	23	32	23	1.97
120508--120614	52	2.0	53	89	3	162	42	15	23	18	1.89
123624--123648	13	1.9	13	100	0	50	44	8	0	48	1.32
125732--125769	20	1.9	20	88	0	58	10	26	36	26	1.89
125752--125810	20	2.7	22	82	12	77	18	23	35	22	1.96
134737--134843	52	2.0	53	89	3	162	41	15	23	19	1.90
135808--135992	48	3.9	48	93	0	289	42	18	8	30	1.80
137170--137217	15	3.2	15	75	0	60	14	58	20	6	1.58
145295--145332	18	2.1	18	85	9	51	34	5	0	60	1.19
148085--148147	31	2.0	31	90	0	99	30	20	7	41	1.81
148309--148334	12	2.2	12	100	0	52	0	7	0	92	0.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
152489--152629	43	3.2	44	80	5	144	27	13	25	33	1.93
156035--156083	18	2.7	18	77	0	53	36	0	6	57	1.24
160611--160735	34	3.8	34	72	19	120	42	10	15	32	1.80
161002--161069	23	2.9	23	76	24	63	22	4	4	69	1.25
160993--161056	20	3.0	21	74	24	55	18	6	4	70	1.27
161132--161257	29	4.6	28	71	15	102	19	4	0	74	1.04
161130--161194	31	2.1	31	86	11	89	26	3	0	70	1.01
161152--161257	20	5.2	19	71	21	65	18	4	0	75	1.03
161181--161256	21	3.8	20	75	13	59	15	5	1	77	1.01
161345--161374	15	2.0	15	100	0	60	20	20	0	60	1.37
164374--164435	23	2.7	22	80	9	72	79	6	14	0	0.93
164374--164443	20	3.3	20	82	9	68	78	5	14	1	1.00
165478--165513	18	2.0	18	94	0	63	16	8	33	41	1.78
166077--166234	36	4.3	36	95	2	280	25	20	13	41	1.88
166114--166437	138	2.4	137	85	1	450	27	20	12	39	1.89
165994--166376	174	2.2	173	85	3	511	27	20	13	38	1.90
166158--166340	102	1.8	101	87	1	276	27	18	14	39	1.89
166253--166376	36	3.4	36	83	3	160	25	21	14	37	1.92
166334--166508	65	2.6	65	83	4	215	32	21	9	36	1.86
166334--166507	68	2.6	67	85	2	217	32	21	9	36	1.86
166976--167422	105	4.3	105	79	9	434	32	25	20	21	1.97
167972--168096	34	3.8	34	73	19	129	42	10	16	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
168355--168408	22	2.6	19	73	21	54	14	5	3	75	1.12
168454--168610	9	16.1	9	69	23	54	21	5	1	72	1.11
168403--168535	71	1.9	69	80	9	153	29	2	2	66	1.16
168442--168561	41	3.0	39	77	15	113	29	2	0	67	1.09
168487--168622	30	4.5	29	73	17	107	19	5	0	75	1.04
168446--168579	30	4.0	32	77	16	105	26	2	1	68	1.12
168514--168590	24	3.2	24	77	15	70	19	5	1	74	1.08
168459--168570	38	2.9	37	74	13	100	24	2	1	71	1.09
168588--168665	18	4.2	19	71	17	65	15	10	1	73	1.16
168501--168617	49	2.4	49	81	8	125	17	5	0	76	1.02

Tables:   1   2   3   4