genome.fa.s9036.2.7.7.80.10.50.1000.2.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: VEPZ01009036.1 Hibiscus syriacus cultivar Beakdansim tig00112443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1934717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1002 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)
150522--150547	13	2.0	13	100	0	52	38	7	23	30	1.83
151818--151909	44	2.1	44	97	0	175	34	6	9	48	1.62
163917--163990	37	2.0	37	97	0	139	39	16	14	29	1.88
180192--180836	55	12.1	54	84	8	335	29	25	15	28	1.96
180224--180851	51	11.8	51	87	5	645	29	26	15	28	1.96
180224--180852	216	3.0	213	85	6	784	29	26	15	28	1.96
182168--182275	9	13.4	8	73	20	50	5	16	0	77	0.94
182178--182293	14	7.8	14	69	22	51	7	13	0	78	0.96
182163--182281	15	7.7	16	72	23	78	6	15	0	78	0.95
182185--182317	6	20.7	6	71	17	56	6	13	0	78	0.98
182175--182324	8	18.2	8	71	20	80	7	13	0	78	0.98
182193--182327	11	12.2	11	66	21	50	7	13	0	78	0.99
198430--198462	15	2.2	15	100	0	66	6	69	18	6	1.30
200170--200201	16	2.0	16	100	0	64	37	25	18	18	1.94
200171--200210	16	2.5	16	91	0	62	42	22	15	20	1.88
202455--202564	24	4.6	24	83	5	116	26	13	18	41	1.87
203040--203086	18	2.7	18	93	3	78	31	8	31	27	1.87
203485--203861	200	1.9	200	87	6	557	39	15	15	30	1.88
213287--213363	40	2.0	38	84	5	100	42	10	12	33	1.77
213408--213476	14	4.9	14	76	0	66	10	11	18	59	1.60
213654--213693	14	2.9	14	92	0	62	10	7	17	65	1.46
213668--213720	24	2.2	24	89	0	79	11	5	20	62	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
218329--218373	21	2.3	19	79	17	56	26	33	17	22	1.96
218336--218376	21	2.0	21	95	0	73	24	29	21	24	1.99
221138--221182	2	22.5	2	100	0	90	48	0	0	51	1.00
221939--221971	17	1.9	17	93	0	57	27	39	18	15	1.90
221958--222064	45	2.4	45	85	7	137	30	21	19	28	1.98
232283--232339	21	2.7	21	88	0	87	26	22	22	28	1.99
233190--233271	24	3.6	22	87	6	78	28	24	17	30	1.97
233211--233271	24	2.5	24	94	0	104	27	24	16	31	1.96
235293--235327	17	2.1	17	89	5	54	20	0	31	48	1.50
235749--235781	14	2.4	14	95	5	59	51	0	0	48	1.00
243524--243569	20	2.3	20	100	0	92	47	0	30	21	1.51
244510--244577	23	3.0	23	91	0	100	20	27	26	25	1.99
250099--250135	20	1.9	19	89	10	58	45	10	24	18	1.81
259162--259229	31	2.1	32	83	8	84	52	1	1	44	1.19
259369--259445	37	2.1	37	80	9	86	67	1	5	25	1.19
260930--261940	113	8.9	113	90	1	1451	28	18	14	38	1.90
261505--261568	20	3.2	20	69	30	64	20	21	6	51	1.69
260930--261940	340	3.0	340	93	1	1656	28	18	14	38	1.90
262340--262396	22	2.6	22	85	0	78	36	12	15	35	1.85
262750--262917	54	3.1	54	92	1	266	22	23	16	37	1.94
264982--265198	115	1.9	114	91	0	353	29	21	17	31	1.96
267478--267516	13	2.9	13	85	14	53	0	15	0	84	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267472--267508	10	3.7	10	88	0	56	0	16	0	83	0.64
273176--273243	31	2.1	32	83	8	84	52	1	1	44	1.19
273383--273459	37	2.1	37	80	9	86	67	1	5	25	1.19
283363--283493	4	32.8	4	100	0	262	25	0	24	50	1.50
292561--292662	39	2.7	35	75	10	96	47	2	5	44	1.42
292708--292826	39	3.0	40	87	7	188	41	5	9	43	1.61
292669--292831	39	4.4	39	80	14	175	44	4	7	42	1.53
293350--293385	18	2.0	18	88	0	54	41	25	19	13	1.88
294149--294187	19	2.1	19	90	0	60	17	2	0	79	0.84
296841--296883	22	1.9	23	85	4	61	48	13	4	32	1.63
296840--296888	22	2.3	21	77	16	55	44	16	4	34	1.66
303943--304721	84	9.4	83	77	5	720	30	25	20	24	1.99
303963--304785	164	5.0	161	81	5	772	30	25	20	24	1.98
303943--304721	247	3.1	244	80	5	816	30	25	20	24	1.99
305331--305397	10	6.4	11	88	8	52	43	1	1	53	1.19
305335--305392	2	29.5	2	92	3	100	46	1	0	51	1.11
305519--305698	39	5.0	36	75	16	131	43	4	7	43	1.53
305555--305698	39	3.9	38	76	15	135	44	3	6	45	1.47
306951--306987	18	2.1	18	89	0	56	18	2	0	78	0.87
310789--310897	46	2.4	44	82	8	121	33	21	19	26	1.97
310835--310958	64	1.9	65	88	4	189	29	21	20	28	1.98
311400--311538	30	4.8	30	73	19	91	51	0	0	48	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
311413--311476	22	2.9	23	84	6	71	50	0	0	50	1.00
311424--311570	30	5.1	30	69	26	95	48	0	1	50	1.09
311468--311502	18	1.9	18	88	0	52	60	0	0	40	0.97
311466--311516	23	2.2	23	89	0	75	54	0	1	43	1.11
311982--312068	15	5.9	15	77	8	79	34	14	8	42	1.76
311982--312063	30	2.8	30	87	5	105	36	14	8	40	1.77
311998--312063	15	4.4	15	86	0	87	39	15	7	37	1.75
311982--312067	45	1.9	44	88	6	129	34	13	8	43	1.74
314191--314304	57	2.0	56	96	1	210	33	17	13	35	1.88
314216--314302	30	3.1	27	66	22	72	35	17	11	35	1.86
314856--314880	13	1.9	13	100	0	50	28	8	0	64	1.22
319745--319797	8	6.6	8	77	14	56	0	3	9	86	0.68
319738--319788	23	2.2	23	89	3	75	0	5	13	80	0.89
319738--319798	33	1.9	32	90	6	97	0	4	13	81	0.83
319745--319796	23	2.3	23	86	0	77	0	3	9	86	0.69
334810--334841	16	1.9	17	93	6	57	71	0	12	15	1.14
341591--341634	23	1.9	23	85	0	61	25	29	6	38	1.81
343478--343522	22	2.0	22	100	0	90	35	8	22	33	1.85
344810--346088	81	15.8	81	90	0	1896	31	20	11	36	1.88
354935--354995	23	2.9	21	85	7	70	21	36	26	16	1.94
354978--355015	20	1.9	20	88	0	58	26	36	26	10	1.89
368294--368340	2	23.5	2	100	0	94	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)
369653--369721	31	2.3	31	76	2	77	30	2	2	63	1.23
371774--371812	20	2.0	20	84	0	51	20	38	35	5	1.75
372289--372347	22	2.5	24	81	13	61	18	8	0	72	1.09
372396--372471	26	3.0	26	74	1	82	27	11	1	59	1.41
383779--384684	105	8.6	105	93	0	1483	32	24	18	24	1.97
385623--385661	20	2.0	20	84	0	51	17	38	38	5	1.72
386220--386271	17	3.0	17	80	11	52	21	0	7	71	1.11
386259--386348	27	3.3	27	76	4	92	25	10	1	63	1.32
386965--387027	21	3.0	21	73	0	63	31	22	15	30	1.95
390320--390374	25	2.2	25	83	6	67	49	5	1	43	1.36
390291--390351	31	1.9	33	86	6	90	45	3	1	49	1.28
390334--390387	25	2.2	24	87	9	74	53	7	1	37	1.40
390875--390916	18	2.3	19	83	4	50	54	4	2	38	1.34
391583--391660	31	2.5	31	91	0	120	25	24	12	37	1.91
392899--392964	31	2.1	31	88	5	98	33	16	28	21	1.95
393329--393497	58	2.9	57	76	9	162	33	21	3	41	1.70
393310--393489	59	3.1	57	76	6	164	32	23	3	39	1.73
393619--393782	60	2.8	60	83	2	188	37	4	24	34	1.75
393683--393774	29	3.1	29	69	6	85	40	3	23	32	1.71
393674--393803	60	2.2	60	84	0	170	36	3	23	35	1.74
398033--398059	2	13.5	2	100	0	54	48	0	0	51	1.00
398881--398929	3	16.7	3	95	4	91	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399574--399928	139	2.6	134	82	4	410	26	18	15	39	1.90
399959--400394	113	3.9	113	87	2	626	28	18	14	38	1.90
399961--400394	226	1.9	225	90	1	699	28	18	14	38	1.90
403492--403718	114	2.0	114	95	0	409	32	19	15	32	1.93
405347--405409	32	2.0	32	93	0	108	23	17	15	42	1.88
405894--405956	8	7.8	8	85	8	83	1	17	0	80	0.78
405894--405956	16	3.9	16	85	10	92	1	17	0	80	0.78
406147--406608	165	2.8	165	91	0	728	26	21	12	39	1.89
412980--413032	3	17.7	3	100	0	106	67	0	0	32	0.91
414201--414237	7	5.3	7	100	0	74	43	13	43	0	1.44

Tables:   1   2   3   4   5   6   7   8   9