genome.fa.s8206.2.7.7.80.10.50.1000.2.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: VEPZ01008206.1 Hibiscus syriacus cultivar Beakdansim tig00110828_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1504526

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1041 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)
133370--133453	19	4.7	19	80	14	106	44	22	22	10	1.84
133348--133453	52	2.0	52	96	0	194	45	20	23	10	1.82
133465--133521	14	3.7	14	75	20	60	8	24	22	43	1.81
133449--133529	33	2.5	33	95	0	144	8	22	22	46	1.78
133506--133581	21	3.7	21	83	3	109	11	25	17	46	1.82
133505--133582	41	1.9	41	97	0	147	12	25	16	44	1.83
133661--133731	33	2.2	33	92	0	115	47	18	22	11	1.80
134114--134267	20	7.7	20	80	7	159	18	17	26	37	1.93
134113--134267	40	3.8	40	81	4	177	18	17	26	38	1.92
134254--134336	21	4.0	21	73	6	78	25	16	24	33	1.96
134234--134332	42	2.4	43	77	11	100	21	18	23	37	1.94
135685--135723	21	1.9	21	85	15	55	33	0	10	56	1.33
145003--145070	11	5.7	12	71	13	50	75	2	4	17	1.10
145003--145070	4	17.0	4	75	11	50	75	2	4	17	1.10
145048--145111	8	7.5	8	74	19	51	79	1	6	12	0.98
145172--145227	3	18.0	3	85	7	76	64	0	5	30	1.16
145245--145291	14	3.2	14	77	17	51	74	0	4	21	0.99
145240--145296	18	3.0	18	74	18	53	73	0	3	22	0.98
146377--146452	37	2.0	38	92	2	127	14	28	22	34	1.93
146475--146542	19	3.8	18	71	21	54	66	1	0	32	1.01
146513--146547	13	2.8	13	91	4	54	60	0	0	40	0.97
146578--146706	70	1.9	67	82	7	161	48	6	3	41	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
146634--146897	36	7.1	37	72	18	153	43	9	4	42	1.57
146575--146773	67	2.9	68	79	15	191	45	8	4	42	1.52
146673--146737	31	2.1	30	86	8	87	43	10	6	40	1.65
146712--146891	39	4.7	37	82	11	188	42	10	3	42	1.57
156736--156761	13	2.0	13	100	0	52	30	23	15	30	1.95
157910--157963	24	2.2	24	93	0	99	29	18	27	24	1.98
159074--159110	2	18.5	2	100	0	74	51	0	0	48	1.00
159173--159208	2	18.0	2	100	0	72	50	0	0	50	1.00
159599--159666	23	3.0	23	82	0	82	20	26	23	29	1.99
174820--174852	2	17.0	2	93	6	59	48	0	0	51	1.00
178669--178765	46	2.1	46	88	0	140	31	7	23	37	1.82
180127--180157	16	1.9	16	100	0	62	58	22	12	6	1.58
180258--180313	10	5.4	10	72	16	51	57	21	12	8	1.62
180227--180307	16	5.1	16	82	14	96	55	23	13	7	1.63
180517--180573	24	2.4	23	85	2	69	26	21	24	28	1.99
180542--180605	11	5.6	11	80	7	74	28	23	20	28	1.99
180540--180597	12	5.0	12	78	12	50	25	22	20	31	1.98
180517--180605	23	3.8	23	84	1	97	29	22	21	26	1.99
181403--181478	24	3.2	24	84	3	100	59	21	9	10	1.58
181428--181479	14	4.0	14	76	19	58	55	25	11	7	1.61
181403--181488	24	3.6	23	81	9	91	56	22	10	10	1.63
183176--183219	2	22.0	2	100	0	88	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
183214--183249	16	2.3	15	90	4	54	41	0	5	52	1.24
193039--193091	20	2.7	19	82	2	70	39	15	15	30	1.87
193257--193292	18	2.0	18	100	0	72	33	22	5	38	1.77
197421--197488	25	2.8	25	86	8	88	39	16	0	44	1.48
197837--197965	30	4.2	30	89	1	168	39	16	21	22	1.92
198628--199049	214	2.0	214	84	1	551	35	24	14	26	1.93
200847--200903	4	14.0	4	98	1	105	24	0	1	73	0.92
203959--204021	25	2.6	24	79	16	67	52	3	3	41	1.33
203966--204021	24	2.4	22	80	19	53	53	3	3	39	1.36
215834--215864	16	1.9	16	93	0	53	48	12	16	22	1.80
216514--216582	23	3.0	23	93	0	111	27	26	26	20	1.99
217266--217385	64	1.9	63	84	1	159	25	16	21	35	1.94
237412--237454	17	2.5	17	100	0	86	34	34	0	30	1.58
239205--239235	3	10.0	3	93	6	53	67	0	0	32	0.91
239321--239665	72	4.7	72	82	5	347	28	20	15	36	1.93
241571--241629	30	2.0	29	83	3	73	37	6	22	33	1.80
241860--241927	23	3.0	23	80	0	82	19	23	25	32	1.97
242358--242382	2	12.5	2	100	0	50	48	0	0	52	1.00
245542--245585	20	2.1	21	91	4	72	27	6	4	61	1.41
245659--245726	2	34.5	2	97	2	129	50	0	0	50	1.00
249003--249035	2	16.5	2	93	0	57	54	0	0	45	0.99
249662--249703	20	2.1	20	90	0	66	33	9	21	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
251624--251689	30	2.2	30	88	0	96	36	13	28	21	1.91
254871--254916	23	2.0	23	100	0	92	21	8	30	39	1.84
255125--255170	14	3.3	14	79	11	58	21	0	13	65	1.26
258533--258557	13	1.9	13	100	0	50	52	8	8	32	1.60
258983--259079	44	2.2	44	83	7	117	26	20	24	27	1.99
267778--267835	30	2.0	30	93	3	100	36	5	13	44	1.66
269308--269355	19	2.5	20	82	3	62	52	6	12	29	1.63
270621--270679	30	2.0	30	93	3	102	35	6	13	44	1.71
270957--270996	20	1.9	22	90	10	66	37	40	10	12	1.77
271211--271280	34	2.1	34	86	5	99	31	15	30	22	1.95
273275--273324	24	2.1	25	85	7	68	34	0	2	64	1.05
273727--273770	21	2.0	22	82	8	54	31	6	6	54	1.53
273899--274050	60	2.5	60	82	4	182	30	22	3	42	1.72
276319--276378	31	1.9	31	83	6	77	30	1	6	61	1.31
281538--281579	18	2.3	19	87	4	59	61	4	0	33	1.17
295920--296045	61	2.1	61	86	4	175	34	14	12	38	1.84
296243--296370	60	2.1	60	80	0	148	34	14	19	31	1.92
297624--297662	20	2.0	20	89	0	60	35	7	15	41	1.76
298848--299101	126	2.0	127	93	3	442	41	6	20	32	1.77
299288--299444	64	2.5	64	85	4	192	33	20	18	28	1.96
300096--300178	31	2.7	31	96	0	148	21	19	20	38	1.93
303529--303563	3	11.7	3	93	0	61	2	34	0	62	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304912--305005	31	3.0	31	90	3	145	20	18	23	38	1.93
307952--307980	15	1.9	15	100	0	58	24	6	27	41	1.80
309373--309807	54	8.0	55	75	8	304	25	7	25	41	1.81
309372--309761	108	3.6	106	77	10	347	24	7	26	42	1.80
312829--312919	32	2.8	32	88	0	128	48	15	16	19	1.81
313665--313707	21	2.0	21	86	0	59	25	4	34	34	1.77
316536--316577	11	3.8	11	90	0	57	54	14	9	21	1.68
319276--319484	30	6.9	30	91	6	343	40	23	16	20	1.91
319276--319484	91	2.3	89	94	3	364	40	23	16	20	1.91
323365--323520	31	5.0	31	96	1	269	37	23	19	19	1.94
326217--326253	18	2.0	20	84	10	51	56	8	2	32	1.43
333351--333478	57	2.2	57	81	12	138	40	9	10	39	1.73
334381--334481	42	2.4	42	91	3	168	45	5	0	48	1.26
334416--334519	15	7.6	14	72	20	71	42	4	0	52	1.22
342856--342962	26	4.1	26	86	3	135	43	0	7	48	1.31
348144--348197	26	2.1	26	96	0	99	44	18	9	27	1.80
348961--349011	3	17.0	3	88	8	77	35	0	0	64	0.94
349497--349526	12	2.5	12	94	0	51	83	10	6	0	0.81
355299--355376	26	3.2	25	67	22	76	24	23	10	42	1.85
355314--355388	20	3.5	20	70	20	62	26	25	10	37	1.89
355966--356012	18	2.6	17	75	21	51	68	14	12	4	1.36
355984--356040	25	2.3	23	79	11	60	70	12	14	3	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355996--356033	11	3.4	11	89	7	58	73	10	10	5	1.23
355973--356037	18	3.2	18	72	25	58	72	12	12	3	1.24
355973--356038	11	6.0	11	74	12	55	72	12	12	3	1.23
356884--356928	24	1.9	24	90	4	74	40	11	4	44	1.60
357205--357254	4	13.2	4	83	12	70	52	22	0	26	1.48
357713--357951	105	2.3	102	82	9	272	30	19	12	37	1.89
357897--358016	36	3.4	36	81	4	120	30	20	12	36	1.89
357915--358016	36	2.9	36	82	4	129	33	19	11	35	1.88
358268--358513	29	8.5	29	71	16	147	28	10	15	46	1.78
358257--358381	28	4.5	26	75	17	117	28	8	14	48	1.74

Tables:   1   2   3   4   5   6   7   8   9