genome.fa.s3836.2.7.7.80.10.50.1000.1.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: VEPZ01003836.1 Hibiscus syriacus cultivar Beakdansim tig00008222_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  532632

Tables:   1   2   3   

This is table  1  of  3  ( 279 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)
894--1417	183	2.9	183	93	2	867	35	15	16	33	1.89
3988--4051	23	2.8	23	87	0	92	35	6	20	37	1.78
3988--4060	23	3.2	23	82	7	85	34	5	20	39	1.76
4417--4478	21	2.8	23	80	7	74	35	6	20	37	1.79
4439--4487	23	2.1	23	88	7	73	34	2	20	42	1.64
4423--4492	21	3.2	21	75	15	61	32	5	21	40	1.77
4845--4908	23	2.8	23	78	0	74	37	6	18	37	1.76
4845--4917	23	3.2	23	75	7	67	35	5	19	39	1.75
3890--5578	430	3.9	430	97	0	3135	39	8	12	39	1.73
5276--5338	22	2.8	23	85	4	83	34	6	20	38	1.78
5276--5352	23	3.5	22	79	13	77	33	5	20	40	1.75
3890--5578	857	2.0	857	96	1	3145	39	8	12	39	1.73
5613--5663	25	2.0	25	92	0	84	33	7	19	39	1.81
5912--5948	18	2.1	18	89	0	56	32	5	10	51	1.60
5904--5950	24	2.0	24	86	0	67	34	4	14	46	1.64
6207--6293	39	2.2	39	95	0	156	48	20	13	17	1.81
6619--6682	23	2.8	23	87	0	92	35	6	20	37	1.78
6619--6691	23	3.2	23	82	7	85	34	5	20	39	1.76
14298--14374	40	1.9	40	97	0	145	16	20	27	35	1.95
24766--24840	3	25.7	3	77	10	57	41	0	0	58	0.98
24775--24830	15	3.8	15	85	2	69	44	0	0	55	0.99
25233--25289	6	10.5	6	73	21	54	59	14	26	0	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25245--25285	15	2.7	15	92	0	64	63	14	21	0	1.30
25232--25298	21	2.8	24	84	13	77	61	11	26	0	1.31
26267--26313	14	3.5	13	80	13	51	40	2	2	55	1.24
37968--38012	16	2.8	16	86	10	65	31	8	4	55	1.51
38761--39603	83	10.2	83	97	0	1560	27	13	21	37	1.91
40385--40837	113	4.0	113	91	2	714	35	16	19	28	1.93
41124--41201	3	26.7	3	81	10	90	37	0	0	62	0.95
41136--41209	12	6.2	12	86	9	89	40	0	0	59	0.97
41600--41689	21	4.0	23	80	13	98	55	13	31	0	1.38
41593--41662	27	2.6	27	97	0	131	57	14	28	0	1.38
41594--41662	6	12.5	6	81	17	87	56	14	28	0	1.39
41604--41702	21	4.5	23	78	14	86	57	12	30	0	1.35
42642--42688	14	3.5	13	80	13	51	40	2	2	55	1.24
45770--45824	21	2.7	20	88	2	65	74	9	3	12	1.18
45776--45824	21	2.3	21	92	0	80	75	10	4	10	1.17
54150--54200	2	26.5	2	80	7	61	45	1	1	50	1.24
55378--55466	28	3.2	27	76	16	85	32	1	4	61	1.23
55424--55468	12	3.8	12	82	11	56	37	0	2	60	1.09
61182--61261	36	2.2	36	81	0	88	32	20	11	36	1.88
61182--61618	138	3.2	138	91	2	693	28	19	11	40	1.86
61452--61514	19	3.4	19	66	20	53	28	20	7	42	1.80
61450--61503	17	3.2	17	69	27	51	29	18	7	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61276--61399	36	3.4	36	90	4	180	28	19	12	40	1.87
61347--61588	65	3.6	66	77	12	269	28	19	11	40	1.87
61450--61700	101	2.5	99	86	6	342	28	19	10	41	1.84
61546--61638	36	2.6	36	78	0	105	26	21	9	41	1.84
61585--61730	66	2.2	65	83	8	179	27	18	10	43	1.82
62350--62397	17	2.9	17	75	9	55	41	4	2	52	1.32
62352--62398	19	2.6	19	76	10	53	42	2	2	53	1.25
62501--62531	16	2.0	16	93	6	55	38	38	16	6	1.74
63729--63768	2	20.0	2	100	0	80	50	0	0	50	1.00
63932--64044	4	26.2	4	68	19	59	19	9	0	70	1.14
63916--64044	39	3.3	39	70	18	104	18	10	0	70	1.15
67904--67954	23	2.2	22	82	6	57	58	5	5	29	1.45
75589--75658	31	2.3	31	87	2	97	25	10	8	55	1.61
75949--75985	2	18.5	2	100	0	74	51	0	0	48	1.00
84112--84268	80	2.0	80	90	0	251	35	9	26	28	1.88
90275--90520	66	3.7	66	83	0	296	27	11	26	34	1.91
91202--91233	15	2.1	16	94	5	57	43	0	6	50	1.27
92614--92705	31	3.0	32	90	6	145	36	19	19	23	1.95
95849--95914	2	34.5	2	88	8	102	50	0	0	50	1.00
96141--96189	24	2.1	22	85	7	62	53	4	2	40	1.32
97077--97114	19	2.0	20	89	5	60	2	31	18	47	1.62
97613--97692	3	26.7	3	75	14	67	66	0	1	32	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97616--97692	19	4.3	18	74	18	63	66	0	1	32	1.00
97627--97692	20	3.2	19	76	23	62	68	0	1	30	0.99
97614--97671	11	5.1	11	78	15	64	63	0	0	36	0.94
98210--98343	36	3.7	36	72	2	124	38	12	17	30	1.87
99003--99059	22	2.6	22	88	0	87	36	14	19	29	1.91
103531--103666	72	1.9	71	92	1	227	35	16	19	27	1.94
108148--108415	147	1.8	146	87	5	398	49	7	5	37	1.56
109329--109366	19	2.0	20	89	5	60	0	31	21	47	1.51
109816--109857	12	3.5	12	84	9	50	71	0	0	28	0.86
109795--109855	22	2.7	23	85	10	72	63	0	0	36	0.94
111489--111582	31	3.0	31	89	3	136	38	23	18	20	1.93
113448--113480	2	16.5	2	100	0	66	51	0	0	48	1.00
121154--121207	26	2.1	26	82	6	65	27	12	22	37	1.91
122817--122885	2	34.5	2	100	0	138	50	0	0	49	1.00
123523--123556	15	2.1	17	89	10	54	11	29	0	58	1.33
124338--124416	3	25.0	3	80	14	79	65	0	0	34	0.93
124338--124416	7	12.5	6	83	9	79	65	0	0	34	0.93
124339--124415	22	3.5	22	87	7	111	66	0	0	33	0.92
124379--124430	17	3.2	16	89	8	61	73	0	3	23	1.00
124659--124993	128	2.5	137	85	6	422	26	19	14	39	1.90
124924--125376	123	3.7	122	92	2	746	24	18	17	39	1.91
125764--125845	22	3.7	22	95	3	139	36	13	14	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
126208--126423	54	4.0	53	89	2	279	25	21	14	37	1.92
129631--129745	1	115.0	1	75	0	95	0	2	10	86	0.65
129631--129745	15	7.3	15	80	14	117	0	2	10	86	0.65
129631--129745	18	6.5	17	80	14	117	0	2	10	86	0.65
129631--129745	29	3.9	29	84	14	137	0	2	10	86	0.65
129641--129733	9	10.3	9	82	13	120	0	0	11	88	0.52
132295--132410	48	2.4	46	73	10	108	55	9	18	17	1.68
132370--132418	20	2.4	21	83	10	57	61	10	16	12	1.57
132370--132418	7	7.1	7	80	15	50	61	10	16	12	1.57
134633--134678	2	23.0	2	100	0	92	50	0	0	50	1.00
147149--147214	27	2.4	28	80	5	73	36	15	18	30	1.91
150334--150373	20	2.0	21	95	5	73	25	20	22	32	1.98
154353--154456	55	1.9	55	90	4	165	23	24	18	34	1.96
154372--155514	55	20.9	54	79	8	648	28	23	17	30	1.97
154415--155599	110	10.8	109	79	6	867	28	23	17	31	1.97
155484--155606	55	2.3	54	80	5	131	24	22	15	37	1.93
155700--155813	37	3.0	37	88	2	165	19	20	20	40	1.92
161743--161775	11	3.1	11	82	8	50	78	6	0	15	0.93
167328--167375	19	2.5	20	86	3	62	31	14	6	47	1.69
170155--170202	19	2.5	20	86	3	62	31	14	6	47	1.69
173033--173080	19	2.5	20	86	3	62	31	14	6	47	1.69
175990--176014	13	1.9	13	100	0	50	16	48	24	12	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
175991--176024	17	1.9	18	94	5	61	17	47	23	11	1.81
176036--176195	84	1.9	85	88	1	241	29	5	22	43	1.74
176054--176205	29	5.3	29	73	4	121	28	5	22	42	1.77
183082--183111	12	2.4	13	94	5	53	16	43	23	16	1.87
183141--183295	29	5.4	28	73	14	109	29	6	21	42	1.78
190694--190772	31	2.6	28	75	16	77	43	11	6	39	1.66
191579--191617	11	3.5	11	82	0	51	46	2	0	51	1.14
192511--192590	24	3.0	27	78	14	103	11	11	20	57	1.63
192498--192586	24	3.5	24	78	11	97	10	12	21	56	1.65
192869--192911	15	3.0	15	83	10	54	67	0	0	32	0.91

Tables:   1   2   3