genome.fa.s9175.2.7.7.80.10.50.1000.23.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  23  of  51  ( 6037 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)
4555881--4555906	4	6.5	4	100	0	52	23	0	0	76	0.78
4555896--4555941	23	2.0	23	86	0	65	10	13	2	73	1.17
4556287--4556355	36	1.9	36	96	0	129	57	13	14	14	1.65
4556353--4556382	13	2.2	14	94	5	53	83	10	6	0	0.81
4557454--4557548	27	3.2	30	66	21	74	50	1	5	43	1.31
4557445--4557576	59	2.4	54	85	10	192	50	3	3	42	1.35
4557463--4557576	58	1.9	59	94	1	203	50	1	4	43	1.32
4564816--4564847	15	2.1	15	100	0	64	21	21	18	37	1.94
4565876--4565932	26	2.2	26	93	0	96	28	22	21	28	1.99
4576044--4576091	14	3.3	14	80	8	51	43	2	0	54	1.12
4576831--4577010	36	5.0	36	80	1	155	40	27	18	12	1.87
4577551--4577604	15	3.4	15	78	14	63	53	1	38	5	1.35
4577563--4577604	18	2.3	19	84	12	61	54	2	40	2	1.26
4578424--4578486	11	5.9	11	73	14	60	57	1	1	39	1.18
4578781--4578835	25	2.2	26	83	9	69	41	5	3	49	1.43
4578805--4578846	15	2.8	15	82	7	50	40	4	2	52	1.35
4578985--4579026	14	3.1	13	83	12	57	47	30	0	21	1.51
4581065--4581117	20	2.7	20	93	0	88	30	26	26	16	1.97
4581466--4581525	30	2.0	30	87	9	86	40	3	23	33	1.71
4581466--4581525	31	2.0	31	87	9	88	40	3	23	33	1.71
4581778--4581875	23	4.2	23	72	12	83	21	22	23	32	1.98
4583529--4583561	11	3.0	11	83	16	50	27	27	24	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4583541--4583589	17	3.1	17	77	22	70	20	30	24	24	1.98
4585536--4585573	20	1.9	20	94	0	67	34	18	21	26	1.96
4586449--4586496	14	3.6	14	71	23	50	39	0	12	47	1.41
4589450--4589492	20	2.0	22	86	8	63	37	0	23	39	1.55
4589763--4589800	20	1.9	20	94	0	67	34	18	21	26	1.96
4590700--4590774	32	2.3	34	80	15	88	32	0	16	52	1.44
4593922--4593971	16	3.0	16	85	11	57	82	2	16	0	0.77
4595386--4595642	86	3.0	86	86	1	354	29	24	22	24	1.99
4595407--4595683	86	3.2	85	77	10	262	28	23	23	24	1.99
4595710--4596193	85	5.7	85	85	3	573	35	22	16	25	1.95
4595711--4596167	169	2.7	169	86	2	596	35	21	17	25	1.95
4595710--4596193	254	1.9	254	85	3	679	35	22	16	25	1.95
4596516--4596890	43	8.7	44	70	13	188	27	31	17	24	1.97
4596590--4596974	129	3.0	129	85	4	569	27	30	17	24	1.97
4598641--4598717	23	3.3	23	83	7	102	32	24	27	15	1.95
4600270--4600307	20	1.9	20	94	0	67	26	21	18	34	1.96
4600315--4600451	64	2.2	63	80	6	143	24	22	18	34	1.96
4602165--4602298	30	4.3	30	74	11	94	19	7	7	65	1.42
4602217--4602304	30	2.9	30	79	1	104	20	5	7	65	1.39
4602384--4602491	30	3.7	29	72	11	78	20	10	7	62	1.51
4603304--4603381	2	39.0	2	100	0	156	50	0	0	50	1.00
4614042--4614090	25	2.0	24	85	14	66	53	0	14	32	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4614239--4614507	83	3.3	82	85	1	324	29	17	19	33	1.95
4614374--4614505	42	3.2	41	69	14	117	31	19	18	29	1.96
4614333--4614463	41	3.2	41	67	14	106	29	18	19	32	1.96
4618896--4618937	21	2.0	21	90	0	66	21	26	23	28	1.99
4619632--4619898	31	8.6	31	94	0	453	38	21	18	20	1.93
4620630--4620684	20	2.8	20	91	0	92	25	30	18	25	1.98
4623701--4623742	21	2.0	21	90	0	66	21	26	23	28	1.99
4624418--4624558	31	4.5	31	92	0	228	39	21	19	20	1.93
4624735--4624795	30	2.1	29	93	3	104	32	11	9	45	1.73
4627328--4627395	29	2.3	29	73	12	68	47	7	17	27	1.74
4627715--4627761	20	2.3	21	88	7	78	82	4	4	8	0.91
4628041--4628266	110	2.2	106	80	7	266	47	15	16	20	1.83
4629039--4629110	3	24.7	3	73	5	58	59	0	2	37	1.12
4630614--4630653	6	6.8	6	86	13	57	0	15	0	85	0.61
4630614--4630653	11	3.4	12	87	12	57	0	15	0	85	0.61
4643510--4643583	29	2.5	30	82	6	89	45	8	14	31	1.74
4643510--4643586	14	5.3	15	67	14	54	45	7	14	32	1.73
4645195--4645239	3	15.0	3	80	0	54	57	0	2	40	1.11
4648627--4648706	34	2.4	33	81	10	81	10	28	7	53	1.61
4648643--4648716	34	2.1	35	97	2	141	14	25	4	55	1.57
4648658--4648712	17	3.2	17	68	27	53	16	25	1	56	1.50
4655037--4655110	30	2.5	30	86	0	103	22	24	20	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4658812--4658851	18	2.4	17	84	15	57	62	0	32	5	1.17
4661567--4661609	17	2.5	17	100	0	86	39	9	32	18	1.83
4664332--4664361	15	2.0	15	100	0	60	26	6	26	40	1.81
4673783--4674258	182	2.6	182	90	1	731	41	14	16	26	1.87
4674179--4674224	20	2.3	19	78	10	56	54	10	15	19	1.70
4676459--4676523	21	3.1	21	88	0	94	43	9	30	16	1.80
4676557--4676622	33	2.0	33	85	5	89	31	0	43	24	1.54
4678711--4679421	201	3.5	201	92	1	1176	36	13	17	32	1.89
4680635--4680687	20	2.7	20	100	0	106	9	26	20	43	1.82
4680689--4680734	22	2.1	22	91	0	74	21	15	23	39	1.92
4681349--4681402	6	9.5	6	95	2	78	0	16	55	27	1.42
4681547--4681641	19	4.7	19	82	8	100	42	21	17	18	1.90
4681503--4681615	22	5.4	22	84	6	103	39	23	17	18	1.92
4681485--4681635	41	3.7	41	71	14	139	41	22	18	17	1.91
4681627--4681678	21	2.5	21	83	0	77	30	26	13	28	1.94
4686042--4686105	23	2.8	23	80	0	83	28	25	28	18	1.98
4686310--4686361	21	2.4	21	80	6	59	32	23	5	38	1.78
4686355--4686437	16	5.4	16	72	21	79	26	27	13	32	1.93
4686350--4686449	30	3.3	30	95	0	173	28	28	12	32	1.92
4686371--4686421	14	3.5	14	75	19	59	27	27	13	31	1.94
4688502--4688993	251	2.0	251	86	2	693	38	14	15	31	1.88
4691630--4692338	200	3.5	195	81	8	712	38	13	16	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4692356--4692517	87	1.9	87	92	0	270	33	12	11	42	1.78
4692434--4692481	23	2.1	23	92	0	78	33	18	8	39	1.81
4694795--4694857	31	2.0	33	84	6	85	50	3	3	42	1.34
4700292--4700348	16	3.8	16	80	19	61	33	0	0	66	0.92
4700296--4700353	20	3.0	19	85	14	75	31	0	0	68	0.89
4701260--4701316	21	2.6	22	78	18	57	42	1	1	54	1.21
4701358--4701409	27	1.9	27	88	7	79	38	0	3	57	1.17
4702480--4702561	32	2.6	32	84	3	94	41	6	13	39	1.69
4708458--4708510	21	2.5	21	75	6	54	43	1	13	41	1.54
4715870--4715904	12	2.8	12	86	4	52	77	5	2	14	1.07
4715840--4715879	17	2.4	17	95	0	71	72	2	0	25	0.97
4716415--4716456	21	2.0	21	85	0	57	23	28	23	23	2.00
4719508--4719633	43	3.0	42	82	6	155	30	12	20	35	1.90
4719528--4719649	43	2.9	42	83	2	154	32	12	18	36	1.88
4719884--4719954	32	2.2	32	90	2	108	33	12	9	43	1.76
4719916--4720143	102	2.2	100	78	9	239	35	19	8	37	1.82
4720424--4720522	32	3.1	32	88	2	146	33	14	9	43	1.76
4720585--4720661	32	2.4	32	86	0	109	33	14	9	42	1.77
4720445--4720761	139	2.3	139	82	4	388	33	17	7	41	1.78
4721402--4721499	32	3.1	32	86	4	101	33	19	8	38	1.81
4721422--4721499	32	2.5	32	91	2	122	34	17	8	38	1.82
4721360--4721744	138	2.8	140	85	2	497	35	19	6	38	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4721557--4721638	32	2.6	32	80	0	101	34	13	8	43	1.74
4726530--4727092	22	25.5	22	85	4	751	41	0	10	48	1.38
4727115--4727173	31	1.9	31	92	0	100	44	8	5	42	1.57
4733202--4733240	19	2.1	19	85	9	53	12	15	12	58	1.62
4733202--4733253	19	2.7	18	80	16	52	13	15	11	59	1.61
4733300--4733429	66	2.0	66	84	3	172	20	20	22	36	1.95
4738166--4738232	28	2.2	32	80	20	90	34	2	0	62	1.10
4738151--4738233	30	2.9	30	79	16	104	36	2	1	60	1.18
4738166--4738249	30	2.9	29	80	16	93	35	3	0	60	1.14
4741056--4741158	52	2.0	52	98	0	197	21	23	13	41	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   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