genome.fa.s7984.2.7.7.80.10.50.1000.2.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  2  of  65  ( 7696 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)
143700--143761	18	3.6	16	78	18	63	79	3	1	16	0.95
143709--143763	6	9.0	6	80	4	65	76	3	1	18	1.02
150282--150456	86	2.0	85	91	3	280	57	11	2	28	1.48
170039--170114	32	2.4	32	77	14	86	31	31	21	15	1.94
170344--170381	16	2.4	16	90	0	58	50	23	5	21	1.69
171147--171386	29	8.2	28	80	11	202	45	19	3	31	1.67
171147--171395	58	4.3	58	84	4	281	44	20	3	30	1.67
171147--171395	87	2.8	85	84	6	302	44	20	3	30	1.67
171372--171499	58	2.2	59	87	1	177	46	15	4	33	1.67
174707--174744	16	2.4	16	86	8	51	52	21	5	21	1.66
175511--175776	29	9.1	29	86	7	312	43	19	3	33	1.66
175511--175776	58	4.6	58	88	4	351	43	19	3	33	1.66
175511--175760	87	2.9	87	88	4	355	43	20	3	32	1.68
175764--175893	59	2.2	59	90	0	197	45	15	4	34	1.67
176361--176400	20	2.0	20	95	0	71	22	10	10	57	1.61
176869--176933	7	9.1	7	83	8	53	80	0	15	4	0.88
176876--176919	17	2.5	17	92	3	70	79	0	15	4	0.89
176870--176928	25	2.4	25	82	5	75	81	0	15	3	0.82
176869--176933	14	5.1	14	75	17	61	80	0	15	4	0.88
176902--176933	7	4.6	7	92	0	55	75	0	15	9	1.05
178075--178470	58	6.8	58	94	0	648	33	10	19	36	1.86
182935--182985	26	1.9	26	88	4	75	33	11	19	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
183007--183095	45	2.0	45	95	0	160	30	11	23	34	1.90
184161--184207	23	2.0	23	91	0	76	61	4	6	27	1.39
185234--185306	20	3.6	20	82	12	87	28	16	30	24	1.96
185915--186134	45	4.9	45	83	3	253	38	10	21	29	1.87
185910--186134	91	2.5	90	82	5	267	37	11	21	29	1.88
187169--187253	30	2.9	29	77	3	98	32	15	5	45	1.70
188467--188509	22	2.0	22	90	0	68	30	4	27	37	1.77
194197--194251	26	2.1	26	100	0	110	27	21	20	30	1.98
199975--200056	23	3.6	22	73	14	78	25	26	24	23	2.00
202632--202691	26	2.3	26	85	5	86	23	21	18	36	1.95
220219--220271	20	2.7	20	100	0	106	24	22	16	35	1.95
221692--221759	29	2.3	30	82	12	72	30	16	7	45	1.74
222471--222497	13	2.1	13	100	0	54	0	59	7	33	1.25
224151--224220	22	3.2	22	87	0	95	44	12	20	22	1.85
224662--225145	44	11.0	44	93	0	745	34	19	6	39	1.77
225222--225716	59	8.4	58	78	7	328	29	21	11	37	1.88
225218--225717	118	4.3	117	75	10	391	29	21	11	37	1.88
229013--229062	16	3.1	16	97	0	91	38	30	4	28	1.75
229189--229242	24	2.3	25	84	9	69	55	0	0	44	0.99
229188--229247	27	2.3	24	81	13	66	55	0	0	45	0.99
229249--229281	16	2.1	16	94	0	57	39	30	3	27	1.72
229030--229470	219	2.0	219	99	0	873	40	14	3	40	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
229408--229461	24	2.3	25	84	9	69	55	0	0	44	0.99
229407--229466	27	2.3	24	81	13	66	55	0	0	45	0.99
236198--236249	26	2.0	26	88	7	79	34	0	17	48	1.48
236576--236700	57	2.2	57	95	0	223	47	2	7	43	1.44
244969--245003	17	2.1	17	88	0	52	17	42	22	17	1.88
246617--246674	24	2.4	24	97	0	107	15	27	41	15	1.87
254279--254303	2	12.5	2	100	0	50	52	0	0	48	1.00
262186--262236	19	2.6	19	96	3	93	17	25	41	15	1.89
263400--263456	27	2.1	27	100	0	114	22	19	33	24	1.97
264990--265028	19	2.1	18	85	4	51	15	30	33	20	1.94
278218--278255	16	2.3	17	81	9	51	65	0	15	18	1.27
285464--285508	22	2.1	22	91	4	74	26	33	24	15	1.95
286071--286134	24	2.7	24	92	0	110	25	26	26	21	2.00
286714--286789	26	3.0	25	76	16	66	39	22	3	34	1.73
287160--287199	21	1.9	21	94	0	71	22	35	32	10	1.87
291283--291321	20	2.1	18	85	9	51	7	7	2	82	0.94
301777--301847	31	2.3	31	82	2	90	32	11	15	40	1.83
303296--303320	11	2.3	11	100	0	50	40	0	0	60	0.97
303843--303985	76	2.0	71	85	12	197	40	6	14	38	1.72
304737--304774	20	1.9	20	88	0	58	31	18	26	23	1.97
306169--306207	20	1.9	21	84	5	53	28	0	2	69	1.02
306197--306237	20	2.0	20	95	0	73	41	7	0	51	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
307118--307185	6	11.7	6	78	6	50	17	11	33	36	1.86
307116--307200	23	3.7	23	93	0	143	17	14	32	35	1.90
307115--307184	29	2.4	29	83	4	79	17	12	32	37	1.87
307168--307206	17	2.3	17	90	0	60	20	15	33	30	1.94
308021--308125	37	2.8	37	83	0	129	40	13	14	32	1.84
308580--308679	22	4.7	19	69	26	67	31	4	2	63	1.24
308788--308850	25	2.4	26	79	15	67	23	0	4	71	1.05
308792--308845	17	3.2	18	76	10	60	24	0	5	70	1.08
308803--308857	17	3.4	16	74	20	53	27	1	1	69	1.09
308927--308956	4	7.2	4	92	7	51	23	3	0	73	0.98
311093--311125	2	16.5	2	100	0	66	48	0	0	51	1.00
317836--317870	2	18.5	2	88	11	56	48	0	0	51	1.00
317834--317873	11	3.4	13	80	20	52	47	0	0	52	1.00
317838--317873	16	2.2	17	95	5	65	47	0	0	52	1.00
318061--318322	138	1.9	138	86	5	379	46	7	7	37	1.61
318644--318707	29	2.2	29	100	0	128	32	21	6	39	1.79
325406--326245	419	2.0	419	95	0	1500	25	15	18	40	1.89
329946--329996	19	2.7	19	90	0	84	33	25	15	25	1.95
333463--333622	65	2.5	65	87	5	218	29	18	22	30	1.97
333633--333670	20	1.9	20	94	0	67	23	15	28	31	1.96
333462--333666	65	3.2	64	83	8	204	28	17	22	31	1.97
334704--334747	21	2.1	21	91	0	70	40	15	36	6	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335547--335589	21	2.0	21	86	0	59	32	4	48	13	1.63
336280--336360	23	3.6	22	80	8	92	28	22	23	25	1.99
336280--336380	44	2.3	44	83	6	116	28	21	23	25	1.99
340173--340212	21	1.9	21	85	10	55	35	10	2	52	1.48
342317--342354	20	1.9	20	94	0	67	23	15	28	31	1.96
342146--342355	65	3.2	65	80	9	225	29	17	23	30	1.97
345354--345395	12	3.4	12	83	3	57	21	19	19	40	1.92
345728--345794	23	2.9	23	82	4	73	50	17	7	23	1.71
350149--350217	25	2.8	25	93	0	120	24	24	10	40	1.86
353026--353067	21	2.0	21	100	0	84	38	19	9	33	1.84
356622--356684	22	3.0	21	79	4	72	36	14	12	36	1.84
359492--359564	22	3.3	22	77	11	62	38	10	12	38	1.78
365186--365227	20	2.2	20	86	4	59	30	0	30	38	1.58
365194--365232	19	2.0	20	85	5	53	28	0	33	38	1.57
366752--366847	50	1.9	49	83	6	122	48	7	16	27	1.72
371320--371368	12	4.2	11	82	14	53	44	2	48	4	1.33
371441--371509	8	8.2	8	71	15	50	37	1	57	2	1.22
372089--372142	28	1.9	28	84	0	72	25	12	11	50	1.74
372442--372518	34	2.3	31	77	18	84	31	0	6	62	1.21
372454--372507	17	3.2	17	82	12	67	25	0	9	64	1.23
373747--373847	51	2.0	51	88	3	150	20	26	21	30	1.98
386308--386351	22	2.0	22	100	0	88	22	13	13	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389171--389265	26	3.7	26	100	0	190	20	11	7	61	1.54
389500--389529	14	2.1	14	93	0	51	26	0	23	50	1.50
392113--392159	2	23.5	2	100	0	94	51	0	0	48	1.00
392329--392387	12	4.9	12	77	8	66	52	18	13	15	1.74
392324--392411	24	3.7	24	81	6	99	50	18	13	18	1.79
392317--392425	48	2.3	48	78	9	116	52	17	12	17	1.75
394806--394919	30	3.9	29	78	7	88	48	22	7	21	1.76
394836--394924	29	3.0	29	81	3	115	51	19	6	22	1.69
396147--396286	64	2.2	64	81	2	156	26	19	28	25	1.99
396985--397119	13	9.3	13	76	16	81	46	4	4	44	1.43

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65