genome.fa.s8016.2.7.7.80.10.50.1000.1.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  1  of  25  ( 2971 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)
6000--6034	15	2.3	15	90	5	52	28	8	11	51	1.67
30927--31386	229	2.0	229	100	0	920	27	33	12	26	1.92
49166--49222	25	2.3	25	91	8	91	24	22	29	22	1.99
49415--49485	30	2.3	31	90	2	108	33	23	2	39	1.70
52468--52582	57	2.0	57	98	0	221	20	18	28	32	1.96
78271--78402	59	2.2	60	84	5	180	33	9	15	41	1.80
83322--83537	103	2.1	101	91	1	351	25	12	24	37	1.90
83554--83616	23	2.7	23	85	4	83	20	25	26	26	1.99
84684--84931	135	1.8	135	88	3	383	19	31	17	31	1.95
94324--94368	16	2.8	16	86	6	56	51	22	11	15	1.75
98368--98400	2	16.5	2	100	0	66	48	0	0	51	1.00
107035--107179	52	2.9	52	85	6	210	33	4	11	50	1.59
111571--111661	20	4.9	20	68	20	72	34	5	15	45	1.69
111570--111719	53	2.9	52	96	3	275	32	6	13	48	1.67
111676--111715	20	2.0	20	95	0	71	37	5	12	45	1.64
116479--116504	5	5.2	5	100	0	52	0	80	0	19	0.71
125861--125915	18	3.1	18	89	0	83	25	30	20	23	1.98
127713--127790	23	3.3	23	78	5	86	33	23	19	24	1.97
127797--128009	103	2.1	103	88	0	309	37	23	12	25	1.91
128800--128957	64	2.5	64	77	10	162	27	18	19	34	1.95
132347--132559	103	2.1	103	89	0	318	37	23	13	26	1.91
136814--136891	23	3.3	23	77	8	86	35	23	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
136898--137110	103	2.1	103	90	0	336	36	23	13	26	1.92
137879--138036	64	2.5	64	78	8	169	26	18	20	34	1.96
140268--140303	2	18.0	2	100	0	72	50	0	0	50	1.00
140330--140378	19	2.6	18	81	12	53	24	6	2	67	1.24
147938--147999	22	2.8	21	76	9	61	32	8	19	40	1.81
152977--153031	22	2.5	22	75	0	56	29	9	21	40	1.84
153927--153955	2	14.5	2	100	0	58	51	0	48	0	1.00
154023--154048	5	5.2	5	100	0	52	0	0	23	76	0.78
154243--154270	2	14.0	2	100	0	56	50	0	0	50	1.00
156774--156858	33	2.7	30	81	13	109	29	49	7	14	1.69
156777--156851	33	2.3	33	95	0	141	29	52	5	13	1.62
167153--167201	24	2.0	24	88	0	71	28	20	20	30	1.98
175471--175535	23	2.8	23	85	0	85	27	12	12	47	1.77
198399--198442	20	2.1	21	91	4	72	43	11	2	43	1.53
198757--198800	2	22.5	2	95	4	81	52	0	0	47	1.00
201397--201726	165	2.0	165	100	0	660	23	27	21	27	1.99
202243--202299	24	2.6	22	81	10	64	64	8	3	22	1.37
203134--203203	14	4.9	14	81	10	88	38	5	20	35	1.76
203409--203471	13	4.9	13	78	14	53	46	0	0	53	1.00
203557--203607	23	2.2	23	82	0	57	45	1	1	50	1.24
203627--203705	28	2.9	28	98	1	151	50	5	0	44	1.24
203764--203810	22	2.1	23	88	4	69	53	0	2	44	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
203772--203815	22	2.0	22	82	8	54	54	0	2	43	1.12
204060--204104	22	2.0	22	95	0	81	51	15	15	17	1.77
204749--204786	20	2.0	19	90	10	60	47	10	23	18	1.79
204823--204949	29	4.3	29	98	1	245	32	3	26	37	1.75
205023--205095	36	2.0	36	84	10	96	49	4	0	46	1.21
206509--206798	114	2.6	114	81	3	291	25	19	13	42	1.87
210822--210869	24	2.0	24	100	0	96	29	29	8	33	1.86
211214--211272	29	2.2	26	76	21	68	25	11	8	54	1.65
211371--211433	23	3.0	20	71	15	63	26	4	15	52	1.63
214181--214552	138	2.7	138	79	8	393	30	11	14	44	1.80
218620--218662	2	22.0	2	95	4	79	48	0	0	51	1.00
222268--222488	64	3.5	64	82	6	234	34	19	17	28	1.95
227359--227576	64	3.5	63	82	8	230	33	19	18	28	1.96
229846--229895	17	3.1	17	68	26	54	20	6	22	52	1.68
230173--230231	22	2.7	22	74	7	59	49	15	16	18	1.80
235495--235547	15	3.6	15	80	14	74	49	0	3	47	1.19
235488--235563	29	2.6	29	100	0	152	52	0	3	43	1.19
235615--235656	21	2.0	20	86	4	57	64	4	7	23	1.38
241414--241495	40	2.0	40	95	0	146	31	25	17	25	1.97
246262--246291	7	4.1	7	95	4	51	13	3	0	83	0.77
246352--246381	9	3.3	9	90	0	51	10	10	3	76	1.12
246344--246435	25	3.6	25	72	20	75	14	9	3	72	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
246487--246525	5	8.0	5	86	13	55	20	2	0	76	0.90
246487--246525	14	2.7	14	96	4	69	20	2	0	76	0.90
246666--246725	33	1.9	30	83	10	75	11	6	6	75	1.19
246664--246778	20	5.6	20	68	16	65	18	5	4	72	1.21
247789--247854	27	2.4	27	85	5	89	34	0	15	50	1.44
247845--247917	28	2.6	27	78	8	74	36	6	9	46	1.63
248630--248672	23	1.9	22	86	13	61	41	18	13	25	1.88
254462--254497	15	2.4	15	90	0	54	8	16	66	8	1.42
255944--256030	35	2.5	34	80	12	97	55	10	8	26	1.61
258343--258383	18	2.3	18	91	4	66	63	2	4	29	1.28
258425--258455	10	3.1	10	95	0	53	35	0	32	32	1.58
260141--260217	36	2.1	37	83	9	95	49	1	3	45	1.28
264721--264755	17	2.1	17	89	10	54	65	0	0	34	0.93
268242--268286	23	2.0	23	82	8	56	37	24	15	22	1.93
272870--272925	28	2.0	28	100	0	112	46	7	3	42	1.48
273053--273127	31	2.4	31	88	0	114	13	13	26	46	1.80
274601--274760	76	2.1	76	81	6	182	60	5	3	31	1.36
277283--277364	42	1.9	43	85	7	114	32	4	2	59	1.31
278324--278382	21	2.8	21	87	7	75	57	5	22	15	1.57
278420--278444	13	1.9	13	100	0	50	68	8	8	16	1.38
278478--278521	22	2.0	22	95	0	79	43	18	6	31	1.76
280487--280516	15	2.0	15	93	0	51	43	20	10	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
280724--280755	2	16.0	2	100	0	64	50	0	0	50	1.00
285478--285633	59	2.6	59	84	3	188	34	18	14	32	1.91
286957--287035	31	2.7	29	94	5	133	58	7	3	30	1.44
288919--299870	610	18.0	610	97	0	20259	23	12	21	42	1.86
302710--302761	24	2.2	24	82	3	70	23	11	17	48	1.79
303007--303097	2	46.5	2	95	4	168	49	0	0	50	1.00
304499--304652	50	3.1	50	80	4	141	64	3	9	21	1.39
304546--304652	17	6.4	16	74	8	79	63	5	10	20	1.46
305144--305178	14	2.6	13	91	8	61	34	28	8	28	1.87
307282--307326	23	2.0	23	81	0	54	24	24	13	37	1.91
308049--308182	67	2.0	67	92	0	223	38	13	6	41	1.71
311033--311066	3	11.3	3	100	0	68	32	0	0	67	0.91
311385--311420	11	3.4	10	88	11	54	44	0	0	55	0.99
311381--311427	21	2.2	21	82	17	62	46	0	0	53	1.00
313315--313361	21	2.2	21	84	0	67	19	23	17	40	1.91
313357--313489	20	6.7	20	99	0	257	39	24	20	15	1.92
313476--313527	20	2.6	20	93	0	95	30	26	21	21	1.98
313707--313772	22	3.0	22	79	0	78	27	37	12	22	1.90
314096--314148	14	3.4	14	75	22	52	7	22	24	45	1.78
314139--314188	20	2.5	20	90	0	73	18	18	28	36	1.94
314096--314168	33	2.2	33	85	2	92	12	21	24	41	1.88
314156--314210	20	2.8	20	91	0	83	10	16	23	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
314175--314218	20	2.2	20	87	0	61	13	13	20	52	1.74
316093--316249	20	8.5	20	74	18	126	41	21	18	18	1.90
316296--316420	20	6.2	20	90	0	151	21	19	20	38	1.94
316929--317009	21	3.9	21	73	0	72	22	35	19	22	1.96
316931--317013	42	2.0	42	83	4	105	21	38	19	20	1.93
318397--318432	14	2.6	14	90	0	54	30	0	22	47	1.52
318538--318667	67	1.9	68	88	1	199	43	18	23	13	1.86
318538--318667	34	3.9	34	90	2	199	43	18	23	13	1.86
318604--318665	20	3.4	20	70	25	73	48	17	20	12	1.80
318684--318777	33	2.8	34	85	3	118	15	23	18	42	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25