genome.fa.s2647.2.7.7.80.10.50.1000.17.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  17  of  26  ( 3011 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)
4184221--4184270	18	2.6	19	78	9	57	30	12	20	38	1.88
4184975--4185008	17	2.0	17	88	0	50	41	0	17	41	1.50
4187475--4187534	26	2.3	26	83	10	79	5	13	5	76	1.11
4189947--4190006	23	2.6	23	81	7	77	8	16	10	65	1.47
4189954--4190006	23	2.2	24	90	3	81	9	15	11	64	1.50
4199988--4200012	13	1.9	13	100	0	50	84	8	0	8	0.79
4207542--4207592	19	2.6	20	87	3	68	45	5	13	35	1.68
4209887--4210035	69	2.2	69	85	0	190	23	18	16	40	1.90
4212420--4212449	8	3.6	8	91	8	51	0	13	0	86	0.57
4217254--4217305	19	2.6	21	87	6	72	46	5	15	32	1.70
4218306--4218354	26	1.9	26	87	4	73	34	12	2	51	1.51
4219446--4219525	35	2.2	37	84	4	110	32	35	3	28	1.75
4223376--4223455	35	2.2	37	91	4	128	31	37	3	27	1.74
4224087--4224125	20	2.0	19	85	5	51	46	10	12	30	1.75
4225679--4225707	2	15.0	2	92	7	51	51	0	0	48	1.00
4227511--4227614	33	3.1	33	82	9	95	30	36	1	30	1.69
4230566--4230619	11	4.8	11	78	13	56	3	16	3	75	1.08
4234967--4235020	11	4.8	11	78	13	56	3	16	3	75	1.08
4236626--4236658	2	17.0	2	93	6	59	51	0	0	48	1.00
4239688--4239739	19	2.6	21	84	6	72	46	5	11	36	1.64
4246837--4246888	19	2.6	21	90	6	81	46	5	13	34	1.67
4259214--4259255	19	2.2	19	91	8	68	59	0	14	26	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4259668--4259718	19	2.6	20	87	3	68	43	7	15	33	1.76
4260704--4260742	20	2.0	19	85	5	51	41	10	17	30	1.83
4264731--4264766	18	2.0	18	89	10	56	77	2	19	0	0.88
4270784--4270843	30	2.0	31	83	3	77	26	8	8	56	1.57
4271753--4271803	20	2.6	20	90	3	77	35	15	5	43	1.71
4288632--4288663	12	2.6	13	90	9	50	56	0	12	31	1.37
4297493--4297547	21	2.4	22	82	14	67	20	12	1	65	1.35
4297493--4297548	23	2.5	21	85	11	67	21	12	1	64	1.36
4297771--4297816	20	2.3	20	85	7	58	76	4	15	4	1.11
4297784--4297829	16	2.6	17	83	13	58	71	6	13	8	1.29
4308330--4308380	20	2.6	20	90	3	77	35	15	5	43	1.71
4308793--4308834	19	2.2	19	87	8	59	28	14	0	57	1.38
4312269--4312319	20	2.6	20	90	3	77	35	15	5	43	1.71
4312732--4312773	19	2.2	19	91	8	68	26	14	0	59	1.35
4314098--4314714	321	1.9	321	97	0	1162	35	14	11	38	1.81
4320587--4320901	168	1.9	170	88	2	483	35	9	30	24	1.87
4323801--4323905	36	2.9	36	92	1	176	31	36	3	28	1.75
4323804--4323888	11	7.2	11	74	22	75	32	36	2	28	1.70
4325528--4325582	24	2.3	25	81	6	60	29	20	16	34	1.94
4327915--4327954	20	1.9	22	85	10	57	37	27	5	30	1.78
4331218--4331259	22	1.9	22	95	0	75	71	4	11	11	1.29
4335558--4335627	8	8.8	8	84	9	90	0	2	12	84	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4335947--4335988	22	1.9	22	85	9	59	66	4	11	16	1.40
4340294--4340359	1	66.0	1	76	0	51	0	3	10	86	0.68
4340294--4340356	9	6.6	9	82	13	81	0	3	11	85	0.70
4340294--4340358	11	5.9	11	80	10	71	0	3	10	86	0.69
4340295--4340360	21	3.0	21	80	6	69	0	3	12	84	0.72
4340680--4340721	22	1.9	22	85	9	59	66	4	11	16	1.40
4345048--4345079	12	2.7	12	100	0	64	0	0	12	87	0.54
4345401--4345442	22	1.9	22	85	9	59	66	4	11	16	1.40
4348908--4348933	13	2.0	13	100	0	52	0	15	0	84	0.62
4348912--4348951	19	2.1	19	85	0	53	0	15	5	80	0.88
4360140--4360171	14	2.3	14	94	0	55	84	3	12	0	0.74
4360132--4360169	19	2.0	20	84	5	51	84	2	13	0	0.73
4360202--4360242	21	1.9	22	90	5	66	80	2	14	2	0.92
4360369--4360429	16	3.9	16	72	12	54	18	19	0	62	1.33
4365257--4365306	20	2.4	19	80	12	55	80	8	12	0	0.92
4365266--4365304	17	2.1	20	86	13	57	82	7	10	0	0.86
4365257--4365306	19	2.3	23	80	16	63	80	8	12	0	0.92
4367580--4367685	53	2.0	52	88	1	158	27	22	11	38	1.88
4367580--4367705	52	2.4	53	85	1	155	26	21	10	41	1.85
4371899--4371983	11	7.2	11	72	22	57	30	37	4	27	1.77
4371896--4372000	36	2.9	35	91	4	165	29	37	5	27	1.80
4376222--4376247	10	2.6	10	100	0	52	73	0	26	0	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4382497--4382553	17	3.5	15	77	15	60	3	10	1	84	0.82
4382503--4382553	9	5.6	9	77	13	59	3	9	1	84	0.83
4382802--4382843	19	2.2	19	91	8	68	59	0	14	26	1.35
4388624--4388652	12	2.5	12	94	5	51	75	6	17	0	1.01
4388613--4388678	20	3.2	20	81	10	80	78	10	10	0	0.96
4388624--4388671	12	4.3	12	75	20	50	77	10	12	0	1.00
4396719--4396762	12	3.6	11	82	17	52	75	4	20	0	0.98
4396784--4396830	14	3.1	15	75	12	51	72	6	19	2	1.17
4399281--4399357	41	1.9	40	91	2	127	38	14	22	24	1.91
4404006--4404034	15	2.0	15	93	6	51	75	3	20	0	0.94
4408248--4408356	51	2.3	49	84	12	138	54	11	0	33	1.44
4409402--4409428	9	3.0	9	100	0	54	55	11	11	22	1.66
4412031--4412070	9	4.6	9	87	3	55	0	5	20	75	0.99
4412411--4412441	11	2.8	11	100	0	62	64	9	9	16	1.48
4412411--4412452	22	1.9	22	85	9	59	66	7	11	14	1.43
4412932--4412977	22	2.0	22	83	12	56	52	13	2	32	1.52
4427764--4427809	19	2.4	19	100	0	92	26	28	4	41	1.74
4430548--4430604	30	1.9	30	88	0	87	24	21	15	38	1.92
4437623--4437665	17	2.5	17	82	17	54	79	6	13	0	0.93
4441311--4441344	13	2.6	13	100	0	68	26	52	0	20	1.46
4446369--4446418	17	2.9	17	81	0	64	42	16	2	40	1.59
4449681--4449733	17	3.1	17	86	0	79	41	13	5	39	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4450046--4450081	17	2.1	17	100	0	72	36	11	36	16	1.84
4453013--4453065	17	3.1	17	86	0	79	41	13	5	39	1.68
4453378--4453413	17	2.1	17	100	0	72	36	11	36	16	1.84
4456343--4456395	17	3.1	17	86	0	79	41	13	5	39	1.68
4465102--4465147	5	9.8	5	86	9	62	84	0	13	2	0.71
4465101--4465147	14	3.4	14	91	5	69	85	0	12	2	0.70
4465102--4465148	19	2.5	19	93	3	78	85	0	12	2	0.70
4478162--4478208	23	2.0	24	88	8	71	80	0	17	2	0.80
4478165--4478208	6	7.2	6	82	12	54	79	0	18	2	0.83
4482648--4482694	23	2.0	24	88	12	71	82	4	12	0	0.80
4482652--4482693	21	2.0	22	86	13	61	83	2	14	0	0.75
4485977--4486007	11	2.8	11	90	0	53	35	29	0	35	1.58
4486676--4486710	17	2.0	18	88	5	54	82	0	14	2	0.77
4491088--4491121	16	2.1	16	88	5	50	82	0	17	0	0.67
4496594--4496697	33	3.1	33	82	9	95	30	36	1	30	1.69
4500624--4500727	33	3.1	33	82	9	95	30	36	1	30	1.69
4501229--4501289	12	5.2	11	82	9	68	83	3	13	0	0.76
4501230--4501289	26	2.3	26	83	10	79	83	3	13	0	0.77
4501231--4501286	27	2.1	27	87	12	80	82	3	14	0	0.81
4501230--4501289	25	2.4	24	83	10	75	83	3	13	0	0.77
4512128--4512195	35	1.9	36	93	3	120	29	2	36	30	1.72
4516174--4516222	19	2.5	20	87	12	66	0	10	6	83	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4516174--4516223	23	2.3	23	89	6	77	0	10	6	84	0.79
4520889--4520979	45	2.0	45	97	0	173	48	16	10	24	1.78
4525503--4525554	22	2.4	22	86	0	68	28	13	26	30	1.94
4528421--4528475	24	2.3	23	82	14	60	30	14	16	38	1.89
4528485--4528535	24	2.1	24	85	0	66	33	15	11	39	1.84
4529670--4529723	23	2.2	25	87	6	76	9	14	12	62	1.53
4531865--4531918	23	2.3	23	93	0	90	11	20	20	48	1.80
4532265--4532317	23	2.3	23	86	0	79	64	13	13	9	1.50
4532306--4532343	20	1.9	20	89	10	60	86	0	13	0	0.56
4532306--4532343	15	2.5	16	91	8	62	86	0	13	0	0.56

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