genome.fa.s7984.2.7.7.80.10.50.1000.1.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: 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  1  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)
9881--9932	21	2.5	20	75	22	54	63	1	0	34	1.06
10353--10385	16	2.0	17	94	5	59	36	6	9	48	1.60
10360--10398	16	2.4	16	86	0	51	41	2	5	51	1.38
10482--10530	22	2.3	20	76	10	53	32	0	4	63	1.13
10482--10533	21	2.5	22	81	6	63	30	0	3	65	1.10
10531--10579	14	3.4	14	78	10	62	34	2	2	61	1.19
10503--10553	26	1.9	27	88	4	77	29	0	1	68	1.00
22533--22560	13	2.2	13	100	0	56	14	71	0	14	1.15
22645--22670	2	13.0	2	100	0	52	50	0	0	50	1.00
23079--23130	2	26.0	2	100	0	104	50	0	0	50	1.00
23303--23341	13	3.1	13	81	7	53	28	0	20	51	1.48
24048--24188	47	3.1	46	84	10	184	53	2	2	41	1.24
24061--24187	2	64.0	2	84	10	163	52	0	2	44	1.19
24375--24422	23	2.1	22	85	11	62	45	0	2	52	1.12
28615--28671	24	2.3	25	90	3	89	59	1	14	24	1.44
28662--28971	120	2.6	116	85	5	435	42	16	18	22	1.88
28877--28901	8	3.1	8	100	0	50	88	0	0	12	0.53
28662--28971	116	2.6	119	85	5	441	42	16	18	22	1.88
29015--29078	29	2.2	29	82	0	74	51	3	15	29	1.59
30105--30468	132	2.8	132	85	5	460	31	17	18	32	1.94
30246--30475	44	5.4	44	70	8	132	30	17	20	31	1.95
30963--31101	73	1.9	76	87	4	212	34	12	21	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30984--31088	36	2.9	36	72	2	93	36	13	20	29	1.91
31131--31518	36	11.6	36	65	18	169	40	13	18	26	1.88
31106--31310	65	3.1	65	92	0	329	39	13	19	27	1.89
31196--31412	101	2.1	101	89	0	326	41	14	18	25	1.88
31131--31574	166	2.7	166	91	1	696	39	13	19	27	1.89
31299--31476	65	2.7	65	89	0	266	41	14	18	25	1.88
31364--31717	99	3.6	99	76	8	357	39	12	18	28	1.88
31556--31605	25	2.0	25	100	0	100	32	8	20	40	1.81
31615--31710	36	2.6	37	83	1	122	44	14	16	23	1.85
32248--32278	16	2.0	15	93	6	53	19	6	29	45	1.75
32640--32682	17	2.5	17	96	0	77	30	13	16	39	1.87
34655--34697	21	2.0	21	86	0	59	32	30	23	13	1.93
34729--34775	22	2.1	22	84	4	58	40	31	19	8	1.81
35262--35308	2	23.5	2	100	0	94	51	0	0	48	1.00
36329--36396	23	3.0	23	91	0	100	20	27	26	25	1.99
46956--47001	15	3.3	14	75	19	51	69	4	6	19	1.28
46997--47054	21	2.8	20	76	21	57	65	1	0	32	1.03
47477--47511	16	2.1	18	89	10	56	37	5	11	45	1.64
47624--47700	14	5.4	14	72	10	57	32	1	2	63	1.16
47631--47675	13	3.4	13	81	6	54	28	0	2	68	1.01
48010--48050	21	1.9	22	85	5	57	43	2	4	48	1.37
56329--56366	19	2.1	18	90	5	58	36	10	15	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59185--59223	14	2.9	14	88	7	55	41	5	2	51	1.38
59841--59871	15	2.1	15	100	0	62	12	74	0	12	1.08
59957--59986	2	15.0	2	100	0	60	50	0	0	50	1.00
60403--60429	2	13.5	2	100	0	54	51	0	0	48	1.00
60485--60525	15	2.7	15	88	7	57	53	2	12	31	1.51
60607--60647	13	3.2	13	82	0	55	29	0	21	48	1.50
61439--61519	14	5.4	15	84	8	78	49	1	6	43	1.35
61373--61495	2	62.0	2	75	16	87	49	1	6	42	1.38
61373--61544	12	14.4	12	70	18	87	48	2	6	41	1.45
61685--61732	23	2.1	22	85	11	62	45	0	2	52	1.12
65933--65989	24	2.3	25	90	3	89	59	1	14	24	1.44
65980--66289	120	2.6	116	85	5	435	42	16	18	22	1.88
66195--66219	8	3.1	8	100	0	50	88	0	0	12	0.53
65980--66289	116	2.6	119	85	5	441	42	16	18	22	1.88
67390--67736	44	7.9	44	68	7	168	31	16	19	32	1.94
67389--67764	132	2.9	132	87	2	533	30	17	19	32	1.94
67533--67764	44	5.3	44	71	4	171	31	17	19	31	1.95
68256--68394	73	1.9	76	87	4	212	34	12	21	31	1.90
68277--68381	36	2.9	36	72	2	93	36	13	20	29	1.91
68424--68981	36	16.6	36	64	18	202	40	13	18	27	1.88
68399--68603	65	3.1	65	92	0	329	39	13	19	27	1.89
68489--68705	101	2.1	101	89	0	326	41	14	18	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68424--68988	166	3.4	166	91	1	873	40	13	18	27	1.88
68592--68769	65	2.7	65	89	0	266	41	14	18	25	1.88
68657--68869	101	2.1	101	87	0	300	39	13	20	26	1.90
68757--68945	65	2.9	65	81	1	216	39	13	20	26	1.89
69519--69549	16	2.0	15	93	6	53	19	6	29	45	1.75
69911--69953	17	2.5	17	96	0	77	30	13	16	39	1.87
71999--72045	22	2.1	22	84	4	58	40	31	19	8	1.81
72528--72557	2	15.0	2	100	0	60	50	0	0	50	1.00
73291--73324	7	4.9	7	89	10	52	26	0	26	47	1.53
73592--73659	23	3.0	23	91	0	100	20	27	26	25	1.99
77218--77262	22	2.0	22	82	4	54	31	31	26	11	1.91
78800--78867	23	3.0	23	88	0	91	22	27	25	25	1.99
82852--82907	2	28.0	2	100	0	112	50	0	0	50	1.00
83933--84000	23	3.0	23	84	0	82	23	26	25	25	2.00
85034--85070	13	2.6	15	79	16	51	45	8	29	16	1.76
87863--87902	19	2.1	19	85	0	53	50	7	5	37	1.53
88004--88030	14	1.9	14	100	0	54	44	0	7	48	1.31
97457--97509	24	2.2	25	89	3	81	58	1	13	26	1.45
97487--97731	126	1.9	128	89	3	379	46	13	17	22	1.83
107841--107876	5	7.2	5	87	0	54	80	2	0	16	0.83
108201--108264	24	2.6	24	95	2	110	65	6	7	20	1.40
109724--109785	3	21.0	3	80	9	74	64	1	3	30	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
109710--109781	33	2.3	31	84	11	94	65	1	4	29	1.20
115687--115735	11	4.1	12	82	14	57	77	6	14	2	1.05
116933--118529	4	404.0	4	92	3	2612	48	25	1	23	1.60
118879--119164	106	2.7	105	91	3	457	31	15	12	41	1.84
119308--119419	29	3.7	30	76	10	93	25	16	13	44	1.84
119966--120045	30	2.7	29	82	3	79	23	18	13	43	1.86
120046--120385	134	2.5	133	84	3	439	26	31	18	23	1.97
120280--120467	91	2.1	91	87	3	272	26	32	17	23	1.97
123581--123643	24	2.6	24	79	0	63	28	26	33	11	1.91
126437--126475	18	2.2	18	86	13	55	33	0	10	56	1.33
129096--129192	20	4.8	20	93	0	167	41	18	19	20	1.91
129179--129265	20	4.3	20	89	0	129	31	26	18	24	1.98
130106--130159	24	2.2	24	93	0	90	20	18	20	40	1.91
132560--132648	20	4.4	20	88	2	135	34	24	22	17	1.96
132620--132710	33	2.7	33	86	3	110	45	19	21	13	1.85
132730--132826	34	2.9	34	93	0	158	13	23	19	43	1.86
132932--132968	14	2.6	14	86	0	56	48	21	0	29	1.50
134365--134457	42	2.2	42	80	3	107	23	16	38	21	1.92
134937--134985	20	2.5	20	100	0	98	38	26	20	14	1.91
135030--135165	20	7.5	20	70	22	77	15	18	22	43	1.87
134992--135165	53	3.3	53	74	18	148	15	19	21	43	1.88
135050--135142	33	2.8	33	83	1	123	12	19	23	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
134998--135162	87	1.9	86	93	1	285	14	19	21	44	1.86
137031--137120	20	4.6	20	85	1	101	45	23	16	14	1.84
137455--137519	22	3.0	22	81	0	76	26	13	35	24	1.93
137734--137786	21	2.5	21	93	0	88	35	16	24	22	1.95
139177--139407	115	2.0	115	95	0	417	31	17	24	26	1.97
141190--141267	39	2.0	39	100	0	156	51	17	0	30	1.46
141229--141400	87	2.0	87	97	0	326	56	11	2	29	1.46
141249--141403	44	3.6	43	73	9	161	57	10	2	29	1.45
143345--143416	30	2.4	30	97	0	135	15	12	23	48	1.79
143463--143528	30	2.3	28	82	10	80	22	24	13	39	1.90

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