genome.fa.s8319.2.7.7.80.10.50.1000.20.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  20  of  21  ( 2487 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)
4309488--4309526	19	2.1	19	100	0	78	28	15	35	20	1.93
4311984--4312059	20	3.7	20	75	16	66	26	18	23	31	1.97
4317099--4317159	30	2.0	30	83	0	77	39	8	22	29	1.83
4317301--4317604	149	2.0	149	96	0	554	26	17	20	34	1.95
4317583--4317627	23	2.0	23	81	0	54	20	24	26	28	1.99
4320848--4320892	21	2.1	21	87	0	63	31	28	24	15	1.96
4322336--4322396	30	2.0	30	83	0	77	39	8	22	29	1.83
4322538--4322841	149	2.0	149	96	0	563	26	17	21	34	1.95
4322820--4322864	23	2.0	23	86	0	63	20	24	28	26	1.99
4324465--4324504	21	1.9	21	85	10	55	35	10	2	52	1.48
4326433--4326610	65	2.8	64	81	2	160	26	17	26	29	1.97
4326559--4326608	19	2.7	18	82	11	66	26	16	34	24	1.95
4326460--4326659	65	3.1	65	79	11	198	27	17	25	30	1.97
4328146--4328190	10	4.3	10	82	5	54	46	28	4	20	1.69
4328491--4328595	36	3.0	36	72	13	92	33	21	11	33	1.89
4328561--4328813	105	2.4	105	90	2	393	28	18	11	41	1.85
4329367--4329440	32	2.4	31	82	6	87	33	14	12	39	1.84
4329431--4329590	63	2.5	64	82	8	180	30	16	12	40	1.86
4329556--4329615	28	2.1	28	82	11	70	30	16	15	38	1.89
4330033--4330085	3	17.7	3	80	7	63	33	1	1	62	1.17
4336183--4336215	15	2.2	15	100	0	66	36	18	12	33	1.88
4343593--4343646	27	2.0	28	85	3	74	29	0	1	68	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4343601--4343638	15	2.5	15	95	4	67	28	0	0	71	0.87
4343899--4343959	16	4.0	16	77	12	56	72	0	0	27	0.85
4343899--4343951	21	2.5	21	90	0	79	73	0	0	26	0.83
4343899--4343963	21	3.3	21	71	20	68	72	0	0	27	0.85
4347947--4347978	15	2.1	15	94	0	55	68	15	0	15	1.21
4361856--4361964	50	2.1	53	85	11	145	32	4	20	43	1.72
4373844--4373880	19	1.9	19	94	0	65	32	29	16	21	1.95
4373991--4374052	20	3.0	20	77	13	81	27	29	20	22	1.99
4373985--4374082	41	2.4	41	80	0	115	32	23	19	24	1.97
4374080--4374125	18	2.5	20	75	13	53	32	17	13	36	1.88
4374216--4374280	21	3.0	21	80	4	76	21	41	13	23	1.89
4374221--4374288	22	3.1	22	80	4	84	23	39	13	23	1.90
4374627--4374664	19	2.0	20	94	5	69	47	21	21	10	1.80
4374668--4374776	20	5.8	20	77	12	106	22	19	22	35	1.96
4374744--4374799	20	2.8	20	86	0	67	14	14	19	51	1.75
4374763--4374807	20	2.2	20	84	0	54	15	11	17	55	1.68
4375362--4375405	20	2.2	20	95	0	79	11	11	25	52	1.70
4375877--4375977	21	4.8	21	73	4	87	21	36	17	23	1.95
4375877--4375999	42	2.9	41	78	4	129	21	36	17	24	1.94
4377338--4377413	36	2.1	36	81	11	86	27	3	17	51	1.63
4377474--4377628	20	7.8	20	93	0	256	27	18	21	31	1.97
4379864--4379900	14	2.6	14	91	4	56	5	21	21	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4380088--4380141	24	2.2	24	90	0	81	40	18	18	22	1.91
4380960--4381063	21	5.3	19	76	15	88	22	20	26	30	1.98
4380973--4381084	21	5.6	21	76	16	130	21	21	25	32	1.98
4380964--4381081	41	3.0	41	91	4	181	22	21	24	31	1.98
4382185--4382216	15	2.1	15	100	0	64	43	0	25	31	1.55
4393734--4393766	16	2.1	16	94	0	57	60	6	15	18	1.54
4403625--4403682	20	2.6	22	79	20	68	31	20	25	22	1.98
4404285--4404343	23	2.6	23	89	5	84	20	28	23	27	1.99
4406567--4406619	23	2.3	23	80	0	61	37	1	3	56	1.28
4406591--4406638	22	2.1	23	81	11	55	35	6	4	54	1.45
4410317--4410356	20	2.0	20	100	0	80	55	15	0	30	1.41
4410418--4410470	21	2.5	21	90	0	79	71	5	16	5	1.25
4416521--4416554	12	2.8	12	95	0	59	5	23	2	67	1.26
4416901--4417130	123	1.9	123	82	5	295	24	26	12	36	1.91
4416922--4417172	123	2.0	121	78	7	256	25	27	11	35	1.91
4425018--4425188	31	5.5	31	94	0	290	40	21	18	19	1.92
4426131--4426199	18	3.9	18	70	22	58	23	33	27	15	1.95
4429166--4429352	31	6.0	31	91	1	286	39	21	17	20	1.92
4435567--4435624	20	2.6	22	81	15	75	29	22	27	20	1.99
4445092--4445211	32	3.8	31	77	15	95	47	15	4	33	1.64
4445150--4445196	21	2.2	22	81	11	62	55	14	0	29	1.40
4451934--4452028	45	2.1	45	82	3	120	32	17	22	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4454752--4454832	24	3.5	24	75	11	80	29	23	24	22	1.99
4460626--4460716	45	2.0	46	89	2	139	26	18	25	29	1.98
4460696--4460741	17	2.6	17	96	3	83	34	13	19	32	1.90
4462131--4462164	2	17.0	2	93	0	59	47	0	0	52	1.00
4466670--4466782	30	3.9	30	77	10	110	49	6	8	35	1.59
4467949--4468021	30	2.4	30	100	0	146	45	2	5	46	1.40
4468429--4468470	21	2.0	20	86	4	57	42	7	0	50	1.30
4474503--4474531	14	2.1	14	100	0	58	41	0	17	41	1.49
4475635--4475716	42	2.0	42	97	0	155	45	24	12	18	1.83
4476987--4477011	2	12.5	2	100	0	50	52	0	48	0	1.00
4482719--4482752	14	2.3	15	90	5	52	29	0	2	67	1.05
4488269--4488437	60	2.8	60	75	7	173	44	7	20	27	1.78
4498548--4498579	15	2.1	15	94	0	55	37	9	6	46	1.61
4500437--4500470	15	2.3	15	94	0	59	38	0	23	38	1.55
4500741--4500780	21	1.9	21	100	0	80	32	15	20	32	1.93
4501980--4502024	23	2.0	23	82	8	56	46	11	11	31	1.74
4502285--4502498	107	2.0	107	99	0	419	34	6	11	48	1.64
4507051--4507133	37	2.2	39	87	8	118	34	13	16	34	1.88
4512925--4512952	5	5.6	5	100	0	56	21	0	0	78	0.75
4513375--4513580	113	1.8	112	89	5	328	39	20	13	26	1.89
4528396--4528454	3	19.7	3	100	0	118	67	0	0	32	0.91
4540014--4540217	68	3.0	67	80	8	254	49	10	10	29	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4544852--4544907	19	2.8	21	78	5	71	17	26	30	25	1.97
4554601--4555050	235	1.9	232	87	3	661	29	12	15	42	1.84
4555136--4555250	36	3.2	36	74	7	126	28	18	15	37	1.91
4555949--4556005	18	3.4	18	66	24	52	29	8	35	26	1.87
4561348--4561383	2	18.0	2	100	0	72	50	0	0	50	1.00
4561428--4561507	2	40.0	2	72	5	54	46	1	3	48	1.28
4573365--4573405	21	1.9	22	90	5	66	24	24	19	31	1.98
4580238--4580277	20	2.0	20	90	0	62	20	35	25	20	1.96
4584484--4584543	22	2.7	22	86	0	75	23	20	18	38	1.93
4587296--4587348	25	2.1	26	96	3	99	11	20	18	49	1.78
4588654--4588699	19	2.6	18	86	10	67	73	6	2	17	1.14
4588720--4588843	51	2.5	49	78	13	128	58	8	12	20	1.60
4590283--4590320	20	1.9	20	94	0	67	34	10	28	26	1.90
4593496--4593553	30	2.0	29	86	6	82	25	25	12	36	1.91
4598826--4599073	130	1.9	130	92	0	415	35	14	13	36	1.85
4599401--4599463	28	2.3	27	81	8	72	47	0	3	49	1.17
4599545--4599578	16	2.0	18	88	11	54	64	5	2	26	1.30
4599619--4599650	16	2.0	16	93	0	55	50	3	0	46	1.17
4599703--4599745	21	2.0	21	100	0	86	39	0	13	46	1.44
4599714--4599799	35	2.5	35	84	0	100	37	1	20	40	1.61
4599930--4599987	29	2.0	29	86	6	82	27	8	29	34	1.87
4600827--4600856	15	1.9	16	93	6	53	13	3	0	83	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4603847--4603871	12	2.1	12	100	0	50	84	0	0	16	0.63
4606336--4606373	16	2.2	17	86	9	51	63	0	2	34	1.09
4608811--4608858	23	2.1	23	88	0	69	2	20	4	72	1.11
4609436--4609475	3	13.0	3	84	5	53	65	2	2	30	1.19
4609682--4609924	40	5.5	40	65	19	117	27	17	30	24	1.97
4609737--4609886	51	3.2	51	65	20	151	26	17	28	27	1.97
4609678--4609913	91	2.6	91	99	0	463	27	18	29	24	1.98
4611013--4611073	22	2.8	22	78	9	63	8	11	0	80	0.91
4623936--4623984	24	2.0	24	88	0	71	2	20	4	73	1.10
4628243--4628318	31	2.5	31	82	0	89	23	23	14	38	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21