genome.fa.s190.2.7.7.80.10.50.1000.19.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  19  of  62  ( 7381 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)
4445920--4445958	17	2.2	18	86	4	53	71	12	10	5	1.28
4457054--4457206	30	5.2	29	74	8	112	61	9	12	16	1.56
4461327--4461362	14	2.6	14	90	0	54	25	13	2	58	1.49
4467893--4467931	20	2.0	20	84	0	51	69	12	0	17	1.19
4469242--4469282	11	3.8	10	87	9	55	41	0	2	56	1.13
4469278--4469375	3	32.7	3	87	4	135	61	1	1	36	1.10
4469694--4470373	113	6.0	113	87	3	956	29	19	13	37	1.90
4469694--4470373	339	2.0	339	90	2	1062	29	19	13	37	1.90
4471097--4471307	83	2.5	83	99	0	413	36	22	14	26	1.93
4471372--4471591	85	2.6	85	90	7	333	41	22	10	25	1.86
4472746--4472812	9	7.1	9	80	9	80	2	11	0	85	0.72
4472746--4472812	28	2.4	28	87	7	100	2	11	0	85	0.72
4472745--4472812	20	3.6	19	81	16	79	2	13	0	83	0.75
4472763--4472814	10	4.9	12	78	21	55	5	13	0	80	0.88
4472746--4472797	1	52.0	1	76	0	50	1	9	0	88	0.59
4485554--4485594	11	3.8	10	87	9	55	41	0	2	56	1.13
4485590--4485675	3	28.7	3	85	0	118	60	1	2	36	1.17
4487985--4488035	2	25.5	2	100	0	102	49	0	0	50	1.00
4491262--4491291	15	2.1	14	93	6	51	83	0	16	0	0.65
4491360--4491402	22	2.0	21	82	13	52	69	4	4	20	1.25
4492352--4492381	16	1.9	15	93	6	51	10	26	43	20	1.83
4492554--4492605	26	2.0	26	85	11	70	73	1	3	21	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4492675--4492753	33	2.4	32	83	8	88	48	5	6	40	1.51
4492712--4492838	42	3.3	39	82	11	136	42	4	4	48	1.45
4492682--4492881	38	5.2	38	78	15	159	44	5	4	46	1.45
4492864--4492899	2	18.5	2	94	5	65	50	0	0	50	1.00
4492826--4492934	56	1.9	55	83	12	139	46	7	1	44	1.42
4492883--4492973	38	2.3	38	75	9	94	42	13	4	39	1.64
4493545--4494925	81	16.9	81	75	9	786	26	19	22	31	1.98
4493579--4494925	165	8.2	163	81	4	1199	26	19	22	31	1.98
4493724--4494925	165	7.3	163	82	3	1220	26	19	22	31	1.98
4496081--4496262	95	1.9	95	87	4	269	30	19	18	31	1.96
4499043--4499093	21	2.4	21	84	12	68	72	3	3	19	1.16
4500238--4500284	3	15.3	3	78	12	51	63	4	0	31	1.13
4500223--4500284	30	1.9	33	84	12	85	67	3	0	29	1.06
4500312--4500543	38	6.2	37	77	15	176	43	6	3	45	1.47
4500347--4500420	33	2.3	33	88	6	107	47	4	6	41	1.49
4500379--4500511	42	3.4	39	82	11	146	42	5	3	48	1.43
4500529--4500564	2	18.5	2	94	5	65	50	0	0	50	1.00
4503435--4503519	28	3.1	27	73	11	73	42	10	8	38	1.69
4507630--4507668	18	2.2	18	85	0	51	43	0	2	53	1.14
4517427--4517482	27	2.1	27	100	0	112	46	17	8	26	1.78
4518708--4518747	15	2.7	15	88	0	53	30	27	2	40	1.70
4518857--4518912	24	2.3	24	81	0	67	32	39	0	28	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4518943--4518972	15	2.0	15	93	0	51	30	20	3	46	1.66
4522441--4522482	21	2.0	21	86	4	59	45	0	2	52	1.13
4523846--4523900	25	2.2	25	93	0	92	30	21	14	32	1.93
4526976--4527010	11	3.2	11	100	0	70	65	0	0	34	0.93
4529521--4529563	21	2.0	21	82	8	52	37	9	0	53	1.33
4534070--4534112	14	2.9	14	80	13	50	51	0	0	48	1.00
4541227--4541258	13	2.5	13	95	5	57	71	12	9	6	1.29
4545341--4545507	78	2.1	80	88	3	248	37	7	1	52	1.41
4549694--4549726	16	2.1	16	100	0	66	57	24	12	6	1.57
4549796--4549858	16	3.9	16	89	0	99	60	22	9	7	1.54
4550845--4550895	24	2.1	24	85	7	68	56	19	11	11	1.65
4550865--4550910	14	3.3	14	96	0	83	50	26	15	8	1.73
4569061--4569124	33	1.9	33	83	0	83	29	17	25	28	1.97
4569819--4570889	201	5.4	197	75	7	735	29	19	21	29	1.98
4572297--4572355	17	3.6	17	76	13	61	32	0	3	64	1.10
4572297--4572365	17	4.1	17	75	12	54	30	0	4	65	1.12
4572338--4572395	22	2.6	21	78	8	62	29	0	3	67	1.07
4575023--4575147	66	1.9	65	88	1	187	44	7	30	17	1.76
4594530--4594569	21	1.9	21	85	10	55	35	10	2	52	1.48
4601801--4601848	17	2.8	17	87	3	60	41	4	0	54	1.20
4603612--4603692	29	2.8	29	73	16	78	34	20	3	40	1.71
4603604--4603742	60	2.4	58	78	7	147	33	17	3	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4603870--4604008	60	2.3	61	83	2	165	38	4	21	35	1.73
4611077--4611104	14	2.0	14	100	0	56	14	21	14	50	1.78
4612868--4612968	51	2.0	51	96	0	184	30	20	12	35	1.91
4615195--4615222	14	2.0	14	100	0	56	14	21	14	50	1.78
4617019--4617050	16	2.0	16	93	0	55	34	25	9	31	1.87
4623340--4623391	20	2.7	19	85	5	68	32	19	13	34	1.90
4626372--4626405	17	2.0	17	88	11	52	29	5	0	64	1.17
4630517--4630597	38	2.2	35	79	16	83	49	3	0	46	1.19
4637389--4637494	31	3.4	31	84	5	142	33	12	27	26	1.92
4645674--4645741	31	2.2	30	89	5	109	26	30	11	30	1.92
4648245--4648282	18	2.2	18	90	4	60	47	28	0	23	1.52
4650798--4650849	20	2.6	20	96	0	95	38	26	13	21	1.90
4650905--4651098	20	9.6	20	76	8	76	35	25	19	19	1.95
4650901--4651098	40	5.0	39	81	4	200	35	26	19	19	1.95
4650905--4651097	60	3.2	60	83	0	251	35	25	19	19	1.95
4651243--4651296	22	2.5	22	78	3	65	24	38	16	20	1.92
4651478--4651548	33	2.2	33	92	0	115	11	22	18	47	1.80
4651669--4651723	14	3.6	14	73	21	56	41	23	25	9	1.83
4651681--4651745	19	3.7	18	72	19	57	44	24	21	9	1.81
4651669--4651740	33	2.2	33	94	0	126	44	25	22	8	1.80
4651757--4651846	14	5.7	14	74	23	81	8	25	23	42	1.83
4651741--4651854	33	3.5	33	92	0	192	8	23	22	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4653551--4654015	92	5.1	93	94	4	849	22	12	18	46	1.83
4653551--4653994	178	2.5	179	96	2	809	22	13	18	46	1.83
4654059--4654187	19	7.3	19	75	17	125	45	28	17	8	1.77
4654095--4654187	33	2.8	32	91	4	150	46	27	18	7	1.76
4654059--4654187	52	2.5	52	74	14	140	45	28	17	8	1.77
4654183--4654317	19	7.6	19	75	16	128	11	19	23	45	1.82
4654205--4654261	14	3.7	14	77	20	60	10	21	22	45	1.82
4654188--4654280	33	2.8	33	95	0	168	10	20	21	47	1.80
4656221--4656256	14	2.6	14	95	0	63	33	0	22	44	1.53
4656362--4656463	19	5.6	19	84	13	151	44	17	23	14	1.86
4656492--4656765	19	15.4	19	81	15	354	14	20	18	47	1.83
4656470--4656737	52	5.0	52	92	4	437	14	21	17	46	1.83
4656492--4656732	109	2.3	102	83	11	176	14	21	17	46	1.83
4658669--4658693	12	2.1	12	100	0	50	0	28	0	72	0.86
4658868--4658914	24	2.0	24	87	8	69	38	21	14	25	1.92
4659596--4659964	20	18.5	20	86	5	451	20	18	26	34	1.96
4661308--4661380	23	3.2	23	94	0	119	39	21	4	34	1.73
4661799--4661848	23	2.2	23	88	0	73	38	20	6	36	1.77
4660907--4662267	464	2.9	467	91	3	2165	40	10	7	41	1.67
4672714--4672753	17	2.3	18	87	8	57	57	7	5	30	1.48
4673587--4673618	2	16.0	2	100	0	64	50	0	0	50	1.00
4675245--4675299	13	4.2	13	80	0	65	49	9	3	38	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4678096--4678135	22	1.9	20	85	10	53	50	7	0	42	1.30
4680383--4680436	2	27.5	2	96	3	101	51	0	0	48	1.00
4681478--4681559	24	3.4	23	80	6	92	45	32	18	3	1.67
4684819--4684854	11	3.2	11	92	4	54	36	0	2	61	1.11
4684850--4684981	3	45.7	3	88	10	204	64	0	0	34	0.99
4684852--4684981	20	6.4	20	92	7	194	64	0	0	34	0.99
4685297--4685826	113	4.7	113	89	2	756	28	20	12	38	1.89
4685297--4685857	229	2.5	227	87	1	784	29	19	13	37	1.90
4686652--4687006	83	4.3	83	94	1	592	36	22	12	27	1.91
4687749--4687789	19	2.2	19	90	0	64	53	4	4	36	1.44

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