genome.fa.s8708.2.7.7.80.10.50.1000.1.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: VEPZ01008708.1 Hibiscus syriacus cultivar Beakdansim tig00111754_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1112311

Tables:   1   2   3   4   

This is table  1  of  4  ( 433 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)
2796--2863	7	9.4	7	73	26	54	76	0	13	10	1.02
2800--2864	16	4.3	16	88	9	93	76	0	13	9	1.00
2796--2877	21	3.8	21	76	20	80	76	0	13	9	1.01
2800--2864	31	2.2	29	88	5	94	76	0	13	9	1.00
2800--2877	15	5.3	15	79	16	83	76	0	14	8	1.00
4098--4352	105	2.4	105	83	2	314	39	17	18	25	1.91
4516--4558	3	14.7	3	90	4	70	37	0	0	62	0.95
6264--6297	2	17.0	2	100	0	68	50	0	0	50	1.00
7024--7085	30	2.1	29	82	8	72	14	6	14	64	1.47
7149--7227	29	2.7	30	72	9	81	25	10	7	56	1.58
7207--7272	30	2.2	30	78	5	71	18	9	7	65	1.45
7352--7405	22	2.5	22	73	11	56	24	3	9	62	1.41
9941--9966	12	2.2	12	100	0	52	30	15	7	46	1.74
10761--10807	23	2.0	23	83	0	58	51	10	17	21	1.75
11107--11145	2	19.5	2	100	0	78	48	0	0	51	1.00
12174--12208	2	17.5	2	100	0	70	48	0	0	51	1.00
13437--13484	24	2.0	24	95	0	87	14	29	16	39	1.88
13634--13694	26	2.3	27	80	8	70	50	8	9	31	1.65
16490--16523	17	2.0	17	88	0	50	58	0	0	41	0.98
16570--16597	9	3.1	9	100	0	56	21	0	0	78	0.75
23747--23801	2	27.5	2	92	0	83	45	0	0	54	0.99
23747--23801	20	2.8	20	97	0	101	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24120--24289	44	3.9	44	93	4	301	24	28	7	40	1.81
24120--24281	85	1.9	85	97	0	306	24	28	6	40	1.80
26103--26306	44	4.7	44	94	3	369	23	28	7	40	1.81
26103--26306	85	2.4	86	95	2	365	23	28	7	40	1.81
32942--33082	36	3.9	36	79	8	153	29	19	16	34	1.94
32941--33082	72	2.0	72	90	0	221	28	20	16	34	1.94
32959--33082	35	3.5	35	78	8	142	29	20	16	34	1.94
33622--33649	14	2.0	14	100	0	56	28	21	7	42	1.79
50716--50748	14	2.2	16	89	10	52	24	6	12	57	1.57
59153--59974	115	7.2	115	88	2	1204	28	23	17	30	1.97
59153--59974	345	2.4	345	92	1	1364	28	23	17	30	1.97
60246--60284	11	3.1	13	85	14	55	46	0	0	53	1.00
60506--60651	26	5.7	26	82	4	179	27	43	13	15	1.84
63591--63622	7	4.6	7	100	0	64	59	0	0	40	0.97
63716--63771	2	28.0	2	100	0	112	50	0	0	50	1.00
64299--64339	2	20.5	2	100	0	82	51	0	0	48	1.00
69376--69404	14	2.0	15	93	6	51	48	0	0	51	1.00
75076--75542	227	2.0	228	97	1	891	32	18	16	32	1.93
76383--76422	20	2.0	20	85	4	55	45	2	10	42	1.51
76997--77360	177	2.0	180	87	5	533	42	3	8	45	1.51
79152--79239	29	3.1	29	73	12	83	21	15	6	55	1.63
86649--86681	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86989--87158	44	3.9	44	93	4	301	24	28	7	40	1.81
86989--87150	85	1.9	85	97	0	306	24	28	6	40	1.80
95024--95100	31	2.5	31	82	2	100	28	31	25	14	1.95
94977--95100	63	2.0	63	80	6	144	25	29	27	16	1.97
96000--96088	9	9.3	9	77	11	79	29	28	26	15	1.96
96006--96068	19	3.3	19	89	8	85	28	31	25	14	1.95
96051--96089	21	1.9	21	89	5	62	33	23	25	17	1.96
102331--102407	31	2.5	31	80	2	91	29	31	24	14	1.94
103554--103630	31	2.5	31	82	2	100	28	31	25	14	1.95
103507--103630	63	2.0	63	80	6	144	25	29	27	16	1.97
104418--104448	7	4.4	7	100	0	62	25	29	29	16	1.96
104445--104524	5	14.8	5	75	14	70	8	22	50	18	1.74
104438--104524	22	4.0	22	96	0	165	10	22	48	18	1.78
104527--104590	19	3.3	19	83	12	69	28	29	26	15	1.96
104553--104611	20	2.9	21	83	14	79	30	23	27	18	1.98
110393--110533	36	3.9	36	77	8	135	29	19	15	35	1.93
110390--110533	72	2.0	72	90	0	225	29	19	15	35	1.93
110410--110533	35	3.5	35	76	8	133	29	19	15	35	1.92
111707--111777	21	3.2	20	76	20	63	61	0	4	33	1.15
117693--117762	23	3.0	23	97	0	131	31	24	21	22	1.98
146073--146317	70	3.5	68	89	7	366	45	0	7	46	1.35
146086--146317	48	5.0	47	76	13	198	46	0	7	45	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
146084--146304	22	9.6	22	79	7	208	46	0	7	45	1.35
146329--146376	15	3.0	16	77	20	55	45	0	10	43	1.38
146367--146420	20	2.7	20	75	16	58	42	0	3	53	1.18
146373--146437	18	3.6	18	79	12	62	41	0	4	53	1.21
146367--146419	18	2.7	20	74	14	56	43	0	3	52	1.19
146407--146440	2	16.5	2	93	6	59	50	0	2	47	1.16
146448--146509	20	3.0	20	80	19	67	16	9	0	74	1.07
146460--146498	16	2.5	16	87	4	53	12	10	0	76	1.01
149155--149366	106	2.0	104	85	4	282	14	22	24	39	1.91
151416--152148	364	2.0	362	91	2	1193	34	16	14	34	1.89
154278--154430	39	3.9	39	78	3	155	33	20	26	18	1.96
155207--155241	17	1.9	19	88	11	56	48	8	5	37	1.58
155884--155930	26	1.9	26	83	12	64	25	8	4	61	1.43
156318--156378	26	2.3	27	80	8	70	50	9	8	31	1.65
159780--159872	49	1.9	48	82	2	114	17	33	31	18	1.94
160435--160536	3	35.3	3	70	21	58	30	2	3	62	1.28
160435--160529	14	6.4	14	73	17	61	29	2	4	64	1.24
160475--160541	25	2.8	25	80	8	77	26	2	2	67	1.20
165417--165522	13	8.9	11	72	15	61	30	2	1	65	1.18
165411--165531	3	39.3	3	74	11	93	31	3	1	63	1.20
165411--165532	16	7.9	16	79	10	112	31	3	1	63	1.20
165429--165531	26	3.9	27	77	14	99	31	2	1	64	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
166069--166093	2	12.5	2	100	0	50	52	0	0	48	1.00
168618--168650	14	2.3	15	89	5	50	24	18	6	51	1.68
168661--168707	24	2.0	24	82	0	58	23	4	10	61	1.46
168911--169183	139	2.0	139	85	4	372	31	11	13	43	1.80
171693--171801	53	2.0	54	91	3	175	45	19	7	27	1.76
180825--181040	115	1.9	115	83	5	285	38	18	20	21	1.93
182605--182648	21	2.1	21	100	0	88	43	20	18	18	1.89
190219--190271	23	2.2	24	86	6	72	26	16	24	32	1.97
194530--194573	18	2.4	18	100	0	88	36	29	20	13	1.91
197851--197881	16	1.9	16	93	0	53	48	0	6	45	1.28
198425--198500	31	2.5	31	84	2	91	43	10	10	35	1.74
204983--205037	21	2.5	22	82	11	69	34	5	16	43	1.71
205206--205283	7	11.3	7	76	2	59	50	32	0	17	1.47
205206--205283	21	3.8	21	77	6	88	50	32	0	17	1.47
205206--205283	41	1.9	41	86	5	113	50	32	0	17	1.47
205406--205432	13	2.1	13	100	0	54	44	0	0	55	0.99
205475--205569	49	2.0	49	89	6	149	50	6	7	35	1.56
205480--205583	48	2.1	49	85	7	140	50	9	6	32	1.61
205566--205630	21	3.1	22	78	8	73	53	26	0	20	1.45
209652--209758	35	3.0	36	93	2	189	31	14	16	36	1.90
210315--210377	31	2.0	31	90	0	99	28	28	9	33	1.88
213970--214075	35	3.0	36	90	4	162	32	15	17	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
229450--229489	21	1.9	21	89	0	62	15	27	25	32	1.95
238062--238101	14	3.1	14	79	20	59	52	0	20	27	1.46
238465--238537	31	2.4	31	97	0	137	42	9	9	38	1.70
244066--244197	58	2.3	58	88	6	187	36	12	12	37	1.82
245051--245116	32	2.1	32	97	0	123	43	4	6	45	1.49
247207--247236	15	2.0	15	93	0	51	16	33	16	33	1.92
254693--254787	23	4.3	22	84	9	97	30	27	15	26	1.96
254725--254788	23	2.8	23	92	0	110	29	28	17	25	1.97
260933--260977	2	22.5	2	100	0	90	48	0	0	51	1.00
262311--262349	3	13.0	3	100	0	78	66	0	0	33	0.92

Tables:   1   2   3   4