genome.fa.s6270.2.7.7.80.10.50.1000.1.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: VEPZ01006270.1 Hibiscus syriacus cultivar Beakdansim tig00014949_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  949592

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 546 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)
3875--3937	30	2.1	31	84	3	83	52	1	3	42	1.27
4346--4381	2	18.0	2	100	0	72	50	0	0	50	1.00
7498--7524	2	13.5	2	100	0	54	48	0	0	51	1.00
13372--13396	2	12.5	2	100	0	50	52	0	0	48	1.00
14773--14802	2	15.0	2	100	0	60	50	0	0	50	1.00
15599--15704	24	4.4	24	71	16	85	51	16	9	21	1.73
24126--24468	59	5.8	58	74	9	245	30	23	9	36	1.87
24219--24468	117	2.1	117	89	1	367	30	23	9	36	1.87
24942--24990	19	2.6	19	90	0	71	30	26	16	26	1.97
33028--33096	27	2.4	29	80	7	70	50	2	2	43	1.32
40450--40498	18	2.7	18	84	15	73	51	2	0	46	1.12
48950--49018	27	2.4	29	80	7	70	50	2	2	43	1.32
50280--50312	2	16.5	2	100	0	66	51	0	0	48	1.00
59402--59611	65	3.3	64	77	10	171	26	17	23	32	1.97
64810--64869	24	2.5	24	87	12	88	23	13	21	41	1.88
64839--64912	24	3.1	24	82	3	87	22	16	16	44	1.86
66996--67032	13	2.8	13	100	0	74	16	48	24	10	1.77
69587--69681	24	4.0	24	86	5	95	24	15	20	40	1.91
69615--69688	24	3.1	24	86	3	96	22	16	17	43	1.88
71775--71811	13	2.8	13	100	0	74	16	48	24	10	1.77
74364--74437	24	3.1	24	86	3	96	22	16	17	43	1.88
75384--75416	12	2.8	12	90	4	50	42	3	0	54	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
78555--78587	12	2.8	12	90	4	50	42	3	0	54	1.15
78767--78844	41	1.9	41	84	5	104	41	2	2	53	1.28
78862--78892	3	10.3	3	100	0	62	32	0	0	67	0.91
81780--81812	12	2.8	12	90	4	50	42	3	0	54	1.15
88093--88125	12	2.8	12	90	4	50	42	3	0	54	1.15
88915--89090	29	6.1	29	90	2	257	31	4	24	39	1.75
89824--89856	15	2.2	16	89	10	52	21	18	12	48	1.80
90332--90379	18	2.6	18	83	3	51	37	0	8	54	1.31
96113--96157	18	2.5	18	96	0	81	17	46	22	13	1.83
96172--96319	29	5.1	29	86	6	178	31	4	22	41	1.74
96172--96319	57	2.6	58	83	9	180	31	4	22	41	1.74
97066--97098	15	2.2	16	89	10	52	21	18	12	48	1.80
97741--97789	24	2.0	25	88	4	73	51	4	2	42	1.32
97880--97983	50	2.1	50	98	0	199	32	19	9	38	1.84
97893--98000	50	2.2	49	88	6	148	34	18	8	38	1.81
98242--98296	30	1.9	30	82	10	71	54	3	1	40	1.28
101449--101503	30	1.9	30	82	10	71	54	5	1	38	1.34
104634--104685	25	2.0	26	85	3	70	25	21	17	36	1.94
106061--106107	17	2.8	16	81	18	51	27	27	29	14	1.96
108260--108335	24	3.2	24	84	3	73	46	19	11	22	1.82
108277--108440	24	6.8	24	81	5	179	40	17	14	27	1.89
108272--108340	12	5.8	12	68	13	52	42	20	14	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108307--108440	48	2.8	48	94	0	232	40	17	14	28	1.88
108278--108436	72	2.2	73	81	9	200	40	18	13	27	1.88
109414--109465	25	2.0	26	81	3	61	28	21	13	36	1.91
112391--112423	2	16.5	2	100	0	66	51	0	0	48	1.00
114173--114205	12	2.8	12	95	4	59	39	6	0	54	1.25
115604--115632	2	14.5	2	100	0	58	51	0	0	48	1.00
120959--121040	36	2.2	36	93	2	137	41	7	18	32	1.78
122810--122899	24	3.8	24	86	5	137	22	15	18	43	1.88
125666--125738	36	2.0	36	97	0	137	42	8	20	28	1.81
127476--127587	24	4.7	24	90	4	163	25	14	20	40	1.90
127488--127526	12	3.2	12	79	13	53	28	12	23	35	1.91
129514--129565	22	2.4	22	80	0	59	55	0	1	42	1.10
132004--132101	24	4.1	24	87	0	124	42	21	13	22	1.87
133243--133278	18	2.0	18	88	0	54	30	16	0	52	1.44
140054--140135	23	3.3	24	72	22	71	45	0	1	53	1.08
140092--140142	23	2.1	23	82	10	57	39	1	1	56	1.22
140139--140199	26	2.3	26	80	5	70	52	1	1	44	1.20
142993--143035	18	2.3	19	80	19	54	51	2	0	46	1.13
143702--143751	15	3.3	15	100	0	100	20	38	8	34	1.82
144251--144296	21	2.3	20	82	17	60	69	0	23	6	1.11
146805--146901	48	2.0	48	86	4	133	19	16	14	49	1.79
146819--146913	24	4.0	24	77	0	100	21	13	15	49	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
149218--149312	24	4.0	24	70	10	77	20	12	15	51	1.75
151618--151712	24	4.0	24	77	0	100	20	13	15	50	1.78
153951--154044	48	2.0	48	89	4	145	20	12	17	50	1.78
153972--154044	24	3.0	24	77	0	92	19	9	17	53	1.71
158228--158322	24	4.0	24	77	2	93	20	13	16	49	1.79
159101--159150	21	2.4	21	75	18	50	46	4	2	48	1.32
162999--163725	372	2.0	372	91	1	1170	34	16	15	33	1.91
165127--165154	2	14.0	2	100	0	56	50	0	0	50	1.00
170432--170469	20	1.9	20	84	10	51	52	2	2	42	1.29
170492--170548	14	4.1	15	72	17	52	47	0	0	52	1.00
171543--171576	13	2.6	14	90	9	54	29	50	11	8	1.69
171636--171668	14	2.4	14	94	0	57	18	6	24	51	1.68
172419--172599	39	4.6	39	82	0	200	20	23	23	32	1.98
172959--173015	28	2.0	29	86	6	80	28	5	14	52	1.62
173187--173224	19	2.0	19	94	0	67	65	0	7	26	1.19
174096--174149	27	2.0	26	85	3	72	31	29	16	22	1.96
176252--176388	68	2.0	68	100	0	274	35	4	30	29	1.77
182662--182694	17	1.9	17	93	0	57	78	0	6	15	0.93
182939--182992	27	2.0	26	85	3	72	27	25	18	27	1.98
187173--187205	16	2.1	16	100	0	66	45	18	0	36	1.49
189451--189490	21	1.9	21	89	0	62	10	25	40	25	1.86
189471--189533	20	2.9	21	79	9	65	15	25	34	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
199234--199429	39	5.0	39	85	0	239	19	27	22	31	1.98
200548--200595	21	2.3	21	92	0	78	27	20	27	25	1.99
201226--201264	20	2.0	20	85	10	53	56	2	0	41	1.13
201339--201386	23	2.1	23	84	7	62	37	2	2	58	1.22
201347--201452	45	2.3	45	77	7	117	45	1	1	50	1.23
204085--204176	2	46.0	2	100	0	184	50	0	0	50	1.00
212234--212271	20	1.9	20	84	10	51	52	2	2	42	1.29
218915--218954	21	1.9	21	89	0	62	25	40	25	10	1.86
220921--220954	17	2.0	17	88	0	50	14	2	29	52	1.56
223191--223275	24	3.5	24	78	0	89	28	12	16	42	1.85
227453--227505	24	2.2	24	86	0	70	24	18	15	41	1.89
229445--229470	2	13.0	2	100	0	52	50	0	0	50	1.00
229414--229454	18	2.3	19	80	20	52	46	2	0	51	1.14
230926--231001	39	1.9	39	89	0	116	34	26	25	14	1.94
241789--241844	14	4.1	15	71	17	50	48	0	0	51	1.00
243746--243892	39	3.8	38	81	7	152	19	23	24	31	1.98
244247--244309	28	2.1	30	82	8	76	28	6	12	52	1.64
244483--244537	19	2.8	19	84	13	67	72	1	7	18	1.16
244483--244539	20	2.8	20	85	12	73	71	1	8	17	1.19
246619--246657	18	2.1	19	90	4	62	30	25	15	28	1.96
253812--253844	17	1.9	17	93	0	57	78	0	6	15	0.93
260718--260815	39	2.5	39	94	0	169	12	24	27	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
260718--260836	39	3.1	39	87	2	123	16	22	26	34	1.95
262222--262250	2	14.5	2	100	0	58	51	0	0	48	1.00
263418--263470	21	2.5	21	93	0	97	26	20	20	32	1.98
265264--265363	31	3.2	31	63	31	77	27	27	10	36	1.88
265269--265391	63	2.0	63	100	0	246	27	28	9	34	1.89
266296--266335	8	5.5	8	77	22	52	20	25	40	15	1.90
266290--266335	15	3.3	14	88	8	67	19	26	39	15	1.91
266296--266363	13	5.3	13	84	13	88	14	23	45	16	1.84
266317--266367	23	2.2	23	100	0	102	7	21	52	17	1.69
268348--268417	12	5.8	12	80	6	79	51	18	15	14	1.77

Tables:   1   2   3   4   5