genome.fa.s4464.2.7.7.80.10.50.1000.1.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: VEPZ01004464.1 Hibiscus syriacus cultivar Beakdansim tig00009840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  466920

Tables:   1   2   

This is table  1  of  2  ( 228 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)
2105--2129	13	1.9	13	100	0	50	16	48	16	20	1.82
4603--4669	12	5.6	12	75	7	64	16	13	17	52	1.75
4603--4674	24	3.0	24	81	0	90	18	12	18	51	1.76
4828--4864	2	18.5	2	100	0	74	48	0	0	51	1.00
6761--6795	18	1.9	18	94	0	61	17	42	22	17	1.88
8170--8288	24	5.0	24	79	6	107	42	19	13	25	1.87
8173--8288	48	2.4	48	81	5	128	42	18	12	25	1.87
8201--8265	12	5.5	11	74	13	58	44	16	13	24	1.85
11616--11689	37	2.0	37	94	2	132	43	8	17	31	1.78
13464--13544	12	6.8	12	69	5	56	18	16	18	46	1.84
13705--13739	2	17.5	2	100	0	70	48	0	0	51	1.00
15228--15257	13	2.3	13	94	0	51	50	33	0	16	1.46
16317--16361	17	2.6	18	79	13	58	6	24	0	68	1.13
16318--16371	13	4.2	13	83	4	56	7	22	0	70	1.12
16939--16987	18	2.6	18	81	15	55	20	12	0	67	1.22
29374--29419	3	15.3	3	90	0	74	36	0	63	0	0.95
29365--29408	21	2.1	21	95	0	79	45	0	54	0	0.99
33880--33953	21	3.5	20	80	10	78	36	22	18	21	1.95
34970--35074	44	2.4	44	77	7	115	20	20	32	27	1.97
39141--39165	4	6.2	4	100	0	50	0	24	0	76	0.80
43212--43236	12	2.1	12	100	0	50	32	0	24	44	1.54
43242--43326	31	2.7	30	79	13	100	40	3	11	44	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53038--53113	40	1.9	40	88	0	116	35	23	10	30	1.89
54798--54853	23	2.4	23	100	0	112	33	25	19	21	1.97
59179--59243	27	2.5	26	76	9	71	43	0	0	56	0.99
59186--59245	23	2.7	22	79	5	68	41	0	0	58	0.98
65683--65743	29	2.1	29	96	0	113	18	21	24	36	1.95
75343--75392	2	25.0	2	100	0	100	50	0	0	50	1.00
79283--79337	2	27.5	2	100	0	110	49	0	0	50	1.00
80995--81032	20	2.0	20	89	5	60	50	21	5	23	1.69
85516--85553	20	2.0	20	89	5	60	50	21	5	23	1.69
86491--86556	33	2.0	33	96	0	123	43	9	18	28	1.80
88953--89024	34	2.1	34	87	7	103	29	13	11	45	1.78
91140--91269	69	1.9	69	100	0	260	37	23	10	29	1.87
99837--99875	19	2.1	19	85	0	51	46	0	7	46	1.31
105544--105991	228	2.0	227	94	2	792	44	8	7	39	1.62
106057--106102	20	2.3	19	89	10	74	54	10	17	17	1.70
106224--106270	20	2.4	19	82	10	67	53	10	17	19	1.72
106233--106275	20	2.3	19	88	11	63	51	11	16	20	1.75
108343--108373	9	3.4	9	95	0	53	25	9	58	6	1.54
108512--108576	21	3.1	21	80	6	69	40	15	29	15	1.88
108610--108675	33	2.0	33	87	0	96	30	0	46	22	1.52
110467--110515	19	2.6	19	93	0	80	30	2	10	57	1.43
110634--111998	198	6.9	198	99	0	2653	36	16	16	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
110634--111998	394	3.4	396	98	0	2662	36	16	16	30	1.91
110634--111998	592	2.3	595	98	0	2655	36	16	16	30	1.91
113435--113506	3	24.0	3	78	0	72	34	5	34	25	1.79
114706--115399	183	3.8	183	96	0	1239	36	14	16	33	1.89
115395--115437	22	1.9	23	90	4	70	30	11	13	44	1.80
118562--118624	23	2.7	23	90	0	90	36	7	17	38	1.79
118562--118634	23	3.2	23	86	3	85	34	6	19	39	1.78
118993--119056	23	2.8	23	87	0	92	35	6	20	37	1.78
118993--119065	23	3.2	23	82	7	85	34	5	20	39	1.76
119330--119380	25	2.0	25	92	0	84	33	7	19	39	1.81
119629--119665	18	2.1	18	89	0	56	32	5	10	51	1.60
119621--119667	24	2.0	24	86	0	67	34	4	14	46	1.64
119923--120048	39	3.2	39	94	0	216	48	19	14	18	1.81
120452--120515	23	2.8	23	87	0	92	35	6	20	37	1.78
120452--120524	23	3.2	23	82	7	85	34	5	20	39	1.76
122340--122368	2	14.5	2	100	0	58	51	0	0	48	1.00
124547--124656	41	2.7	40	90	4	175	18	20	25	36	1.94
124572--124644	20	3.6	20	75	3	83	10	21	27	39	1.87
124551--124656	20	5.2	21	68	7	67	17	19	26	35	1.95
124850--124886	6	6.2	6	100	0	74	35	48	16	0	1.46
124883--124930	5	9.6	5	100	0	96	39	20	39	0	1.53
125412--125443	6	5.5	6	96	3	57	0	15	53	31	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
125440--125470	6	5.2	6	100	0	62	32	0	32	35	1.58
125588--125758	20	8.4	20	75	8	166	39	24	22	14	1.91
125544--125742	41	4.9	41	91	3	296	38	24	21	15	1.92
125560--125787	61	3.7	61	78	9	176	38	24	21	15	1.92
125670--125787	61	1.9	61	98	0	227	38	23	20	16	1.92
126686--126733	21	2.3	20	79	10	51	14	6	2	77	1.06
132099--132138	16	2.5	16	95	0	71	37	22	5	35	1.76
132592--132683	41	2.2	41	86	0	139	33	22	14	29	1.93
136058--136098	12	3.4	12	78	21	50	26	0	17	56	1.41
136178--136220	21	2.0	21	82	8	52	32	0	9	58	1.30
141330--141398	3	23.0	3	93	0	120	63	0	1	34	1.03
141526--142287	113	6.7	113	90	0	1168	28	19	13	38	1.90
141524--142287	339	2.3	339	97	1	1424	28	19	13	37	1.90
142820--143184	83	4.4	82	93	2	563	34	21	13	29	1.92
144288--144371	12	7.2	12	78	18	90	2	17	0	79	0.83
144289--144361	26	2.8	26	83	8	85	2	16	0	80	0.82
144333--144366	5	6.8	5	87	12	52	0	17	0	82	0.67
144303--144371	7	9.6	7	73	17	61	2	15	0	81	0.81
144289--144371	32	2.6	33	83	7	100	2	16	0	80	0.81
149010--149051	18	2.4	17	84	11	50	69	4	0	26	1.08
151212--151309	3	32.7	3	85	4	135	61	0	3	35	1.12
167606--167650	11	3.8	11	78	16	54	77	0	17	4	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
168378--168420	2	21.5	2	100	0	86	51	0	0	48	1.00
174269--174339	19	3.7	20	79	9	60	39	5	1	53	1.33
175530--175585	18	3.1	18	76	0	58	25	8	0	66	1.21
175607--175640	2	17.0	2	100	0	68	50	0	0	50	1.00
175744--175791	2	24.0	2	100	0	96	50	0	0	50	1.00
176090--176160	13	5.5	13	76	14	67	14	2	5	77	1.06
176085--176160	21	3.6	21	77	12	75	14	2	6	76	1.10
176086--176160	26	3.0	27	76	20	81	13	2	6	77	1.07
186563--186705	73	2.0	73	83	2	180	53	11	24	10	1.67
187300--187437	72	1.9	72	82	5	172	53	11	24	10	1.68
187410--187451	18	2.4	18	84	7	61	78	0	19	2	0.86
187408--187450	7	5.6	7	84	13	50	79	0	18	2	0.85
188206--189075	105	8.4	105	93	2	1422	32	26	18	22	1.97
188847--189001	43	3.4	42	66	19	114	35	25	18	21	1.95
188841--189027	94	2.0	94	96	0	347	34	24	17	23	1.96
189469--189539	19	3.7	20	79	9	60	39	5	1	53	1.33
190650--190714	2	35.5	2	76	17	61	40	0	4	55	1.21
190748--190816	9	7.7	9	72	4	50	23	8	0	68	1.17
190748--190803	18	3.1	18	76	0	58	25	8	0	66	1.21
190824--190849	2	13.0	2	100	0	52	50	0	0	50	1.00
190957--190999	2	21.5	2	100	0	86	48	0	0	51	1.00
191304--191379	13	5.9	13	77	13	68	14	2	5	77	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
191299--191379	21	3.8	21	76	12	76	14	2	6	76	1.08
192214--192330	42	2.8	42	92	3	191	17	16	19	47	1.83
192522--192580	15	3.9	15	72	14	59	49	1	0	49	1.11
193020--193070	15	3.4	15	88	0	84	37	19	5	37	1.76
193007--193075	30	2.3	29	95	2	120	31	18	5	43	1.74
202109--202146	16	2.3	17	95	4	69	39	39	2	18	1.65
202263--202373	37	3.0	37	88	1	161	40	12	12	34	1.81
203004--203085	33	2.4	33	78	13	87	20	12	1	65	1.32
203070--203101	16	1.9	17	93	6	57	28	3	0	68	1.04
203169--203224	27	2.1	27	83	12	71	14	5	3	76	1.09

Tables:   1   2