genome.fa.s4578.2.7.7.80.10.50.1000.1.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: VEPZ01004578.1 Hibiscus syriacus cultivar Beakdansim tig00010204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1248949

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 816 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)
1892--1935	22	2.0	22	95	0	79	15	4	11	68	1.36
2395--2432	2	18.5	2	94	5	67	47	0	2	50	1.15
5260--5299	16	2.5	16	100	0	80	50	30	15	5	1.65
18237--18285	7	6.5	8	86	11	52	83	0	8	8	0.81
19189--19948	55	13.9	55	85	6	872	30	16	25	26	1.97
19650--19811	53	3.1	51	82	10	209	32	19	24	23	1.98
19637--20081	55	8.2	54	72	14	190	30	17	24	27	1.97
21036--21075	16	2.5	16	100	0	80	50	30	15	5	1.65
24548--24711	41	3.9	41	78	9	154	26	10	6	56	1.59
31603--31932	91	3.6	90	90	1	473	23	22	16	37	1.93
31603--32302	182	3.9	182	84	6	905	24	22	16	36	1.94
31880--32015	39	3.5	39	69	16	120	22	22	14	40	1.90
31933--32302	91	4.1	91	88	1	519	24	22	16	36	1.94
31674--32302	259	2.4	259	87	4	846	24	22	16	36	1.94
31609--32282	350	1.9	349	91	0	1098	24	22	16	37	1.93
32733--32864	66	2.0	66	83	7	169	40	17	19	22	1.92
38071--38141	33	2.2	33	100	0	142	38	8	26	26	1.85
38553--38604	23	2.3	23	96	0	95	15	7	44	32	1.75
41544--41911	131	2.8	131	84	1	477	40	17	10	30	1.84
44068--44103	3	11.7	3	94	5	63	66	0	0	33	0.92
44598--44659	3	21.0	3	96	3	117	33	0	0	66	0.92
45811--45876	14	4.7	14	70	7	53	28	18	25	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45811--45885	28	2.6	28	83	6	89	28	16	25	30	1.96
46341--46512	88	2.0	85	80	7	195	39	14	12	33	1.83
46528--46625	39	2.5	40	86	5	137	33	13	11	41	1.80
46528--46644	39	3.0	38	82	6	119	31	12	13	41	1.82
50010--50051	22	1.9	22	90	0	66	21	35	9	33	1.86
50028--50098	23	3.0	24	85	4	99	23	33	8	33	1.85
50366--50476	33	3.4	33	80	0	114	36	9	18	35	1.83
57180--57206	2	13.5	2	100	0	54	48	0	0	51	1.00
60633--60739	33	3.0	33	84	11	124	14	8	33	43	1.75
61711--61775	30	2.2	30	94	0	112	33	16	18	30	1.94
68077--68115	14	2.7	15	80	11	55	46	5	15	33	1.68
68595--68657	23	2.7	23	87	2	90	19	23	33	23	1.97
68608--68668	22	2.7	23	89	2	88	18	24	32	24	1.97
68593--68668	22	3.3	22	83	7	80	19	25	30	25	1.98
74973--75082	43	2.5	43	75	19	102	41	16	1	40	1.59
77828--77898	27	2.6	28	79	4	81	66	9	9	14	1.45
78091--78154	24	2.7	24	97	0	119	25	25	28	21	1.99
84177--84253	20	3.8	20	70	13	66	41	10	25	22	1.85
85073--85159	3	29.0	3	73	9	70	37	1	0	60	1.04
85582--85622	21	2.0	21	85	0	55	58	24	9	7	1.55
86456--86512	29	1.9	30	82	10	73	28	8	3	59	1.44
86998--87047	18	2.6	19	72	15	50	42	6	4	48	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86791--87148	128	2.8	128	88	4	546	37	8	8	45	1.65
87664--87696	11	3.0	11	87	12	50	30	6	0	63	1.18
92056--92105	12	3.9	12	84	10	64	84	0	16	0	0.63
92059--92105	15	3.1	15	85	14	62	85	0	14	0	0.61
92053--92103	20	2.4	20	90	9	75	82	0	17	0	0.67
97217--97281	20	3.2	20	61	8	51	46	9	20	24	1.79
97095--97633	122	4.6	115	79	10	467	39	14	19	27	1.90
97971--98066	3	32.0	3	76	8	79	38	1	0	60	1.04
99268--99324	29	1.9	30	82	10	73	28	8	3	59	1.44
99413--99442	2	15.0	2	100	0	60	50	0	0	50	1.00
99628--99664	19	1.9	19	94	0	65	32	29	16	21	1.95
99792--99914	20	6.1	20	83	9	144	30	26	18	23	1.98
99944--99995	25	2.1	25	100	0	104	34	23	15	26	1.94
100103--100160	22	2.6	22	83	0	71	18	39	18	22	1.92
100496--100578	33	2.5	34	88	2	132	19	20	24	36	1.95
100566--100620	19	2.8	20	80	5	67	14	14	20	50	1.77
101112--101247	68	2.0	68	100	0	272	23	25	20	30	1.98
102527--102648	20	6.4	20	73	16	98	36	23	20	19	1.95
102527--102686	74	2.2	74	91	0	266	38	23	20	18	1.94
102691--102727	19	1.9	19	94	0	65	5	13	29	51	1.63
102730--102779	20	2.5	20	100	0	100	24	20	26	30	1.98
103275--103375	42	2.4	42	83	0	121	20	38	18	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
103264--103371	21	5.1	21	75	4	101	19	37	19	24	1.94
104743--104808	30	2.2	30	97	0	123	30	1	13	54	1.48
104957--105096	20	7.7	20	72	18	103	22	21	22	33	1.97
104923--105091	34	4.8	33	79	12	151	21	21	21	35	1.96
104945--105160	53	4.1	52	75	12	188	21	20	20	37	1.95
105029--105164	53	2.5	53	88	5	193	22	19	20	36	1.95
105347--105381	18	1.9	18	94	0	61	17	2	25	54	1.57
107408--107444	14	2.6	14	91	4	56	5	21	21	51	1.68
107634--107687	24	2.2	24	93	0	90	40	20	18	20	1.91
108497--108644	20	7.3	20	74	11	131	23	18	27	29	1.98
108516--108624	41	2.7	41	85	0	146	23	18	26	31	1.97
108659--108706	20	2.4	20	96	0	87	22	16	16	43	1.87
108792--108828	19	1.9	19	88	0	56	24	16	27	32	1.96
109062--109109	18	2.5	19	77	16	55	45	6	0	47	1.27
108987--109328	128	2.7	127	89	4	528	37	8	7	45	1.64
109190--109239	18	2.6	19	72	15	50	42	6	4	48	1.46
109316--109373	26	2.3	25	78	18	66	48	1	1	48	1.22
110423--110459	18	2.1	18	100	0	74	37	16	29	16	1.90
115502--115708	64	3.2	63	85	7	258	28	16	23	31	1.96
115502--115661	65	2.5	64	90	6	252	29	16	23	31	1.96
118253--118475	111	2.0	111	97	2	421	43	7	24	25	1.79
121548--121584	15	2.4	16	86	9	58	62	2	0	35	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
124481--124855	191	2.0	184	93	5	637	27	28	13	30	1.94
125848--125881	16	2.1	17	88	5	52	52	5	5	35	1.50
126018--126058	22	1.9	21	95	5	73	51	2	0	46	1.14
126018--126078	22	2.8	21	85	7	68	50	1	0	47	1.10
126282--126311	14	2.1	14	93	0	51	46	10	0	43	1.37
126444--126490	22	2.1	23	84	4	60	46	0	2	51	1.13
127167--127192	10	2.6	10	100	0	52	80	0	0	19	0.71
131070--131120	26	2.0	26	92	7	86	50	1	7	39	1.42
136138--136173	18	2.0	18	88	0	54	52	0	16	30	1.44
137306--137396	24	3.8	24	80	2	103	27	15	18	38	1.91
137474--137548	35	2.1	35	97	0	141	10	29	26	33	1.90
141555--141590	18	2.0	18	88	0	54	52	0	16	30	1.44
142724--142814	24	3.8	24	80	2	103	27	15	18	38	1.91
142892--142966	35	2.1	35	100	0	150	9	30	26	33	1.88
143770--143839	2	35.0	2	100	0	140	50	0	0	50	1.00
143825--143888	25	2.5	25	87	2	83	32	6	14	46	1.69
145267--145321	20	2.7	21	83	5	60	43	1	0	54	1.10
145275--145319	17	2.7	16	86	6	63	42	2	0	55	1.12
145275--145325	17	3.0	16	80	11	57	41	3	0	54	1.19
147456--147490	19	1.9	18	88	11	54	20	0	11	68	1.20
150999--151036	15	2.6	15	91	4	60	36	5	28	28	1.79
160247--160415	92	1.9	91	87	2	250	38	13	23	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
160103--160550	227	2.0	227	92	0	752	36	17	21	25	1.95
160330--160682	135	2.6	135	89	2	503	34	16	21	27	1.95
160811--160865	20	2.7	21	83	5	60	43	1	0	54	1.10
160819--160863	17	2.7	16	86	6	63	42	2	0	55	1.12
160819--160869	17	3.0	16	80	11	57	41	3	0	54	1.19
164420--164456	18	2.0	19	89	5	58	40	0	2	56	1.13
165540--165585	18	2.6	18	82	6	58	56	0	0	43	0.99
165547--165585	19	2.2	19	90	9	64	56	0	0	43	0.99
177204--177255	23	2.3	23	83	6	61	44	1	5	48	1.38
177254--177299	23	1.9	25	86	8	69	58	0	0	41	0.98

Tables:   1   2   3   4   5   6   7