genome.fa.s8523.2.7.7.80.10.50.1000.17.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

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

This is table  17  of  18  ( 2060 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)
4255952--4256058	20	5.3	20	80	2	106	24	18	25	31	1.98
4255992--4256069	41	1.9	41	83	0	102	23	16	20	39	1.92
4256063--4256130	21	3.3	21	79	4	93	16	25	17	41	1.89
4256074--4256147	20	3.7	20	80	3	94	17	22	18	40	1.91
4256055--4256147	41	2.3	41	98	0	177	18	24	17	39	1.91
4262803--4262829	3	9.0	3	100	0	54	33	0	0	66	0.92
4266980--4267019	21	2.0	21	90	5	64	45	7	7	40	1.61
4273526--4273563	20	1.9	20	84	10	51	76	7	0	15	1.01
4275142--4275183	19	2.1	21	82	8	52	9	0	26	64	1.24
4276856--4276885	2	15.0	2	100	0	60	50	0	0	50	1.00
4280242--4280445	73	2.7	75	83	11	249	44	3	6	46	1.46
4280418--4280509	31	2.9	31	85	3	130	44	3	6	45	1.45
4283352--4283381	15	2.0	15	93	0	51	6	40	3	50	1.45
4294936--4294998	26	2.4	26	97	0	117	31	19	11	38	1.86
4301758--4301846	29	3.1	29	61	11	67	42	14	11	31	1.81
4303639--4303681	8	5.4	8	81	10	52	46	13	2	37	1.57
4306403--4306443	19	2.2	19	86	8	57	24	19	0	56	1.42
4312493--4312540	21	2.2	22	88	3	71	39	10	0	50	1.37
4314604--4314643	21	1.9	21	94	0	71	32	32	20	15	1.93
4314608--4314655	21	2.3	21	85	0	60	37	33	14	14	1.87
4317281--4317319	18	2.2	18	95	0	69	25	20	30	23	1.98
4326647--4326702	4	14.0	4	74	7	51	69	0	1	28	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4327979--4328018	16	2.4	16	87	8	53	50	5	2	42	1.37
4328645--4328769	66	1.9	65	90	1	196	35	13	20	30	1.92
4329153--4329777	106	6.0	106	87	3	742	23	18	25	32	1.97
4330606--4330658	22	2.4	22	90	0	88	26	11	24	37	1.89
4331290--4331335	24	1.9	24	86	8	67	0	15	6	78	0.95
4331283--4331341	11	5.8	10	79	15	59	0	15	5	79	0.89
4331274--4331340	22	3.2	20	75	20	66	0	14	5	79	0.92
4333669--4333728	25	2.3	26	82	5	68	15	38	26	20	1.91
4333701--4333733	17	1.9	17	100	0	66	15	48	24	12	1.78
4333711--4333739	13	2.3	13	94	5	51	17	44	24	13	1.85
4333840--4333911	29	2.5	29	86	4	92	30	6	23	38	1.81
4336549--4336929	191	2.0	190	96	2	712	24	22	25	27	2.00
4340736--4340853	28	4.2	29	72	5	107	31	5	22	39	1.78
4340774--4340872	28	3.5	29	78	5	87	36	6	21	36	1.78
4343813--4343837	11	2.3	11	100	0	50	76	0	0	24	0.80
4345065--4345103	16	2.3	16	86	8	51	48	5	2	43	1.38
4360944--4360993	24	2.1	24	84	0	64	50	8	2	40	1.43
4366488--4366520	9	3.3	10	87	12	50	54	12	0	33	1.37
4370306--4370376	36	2.0	36	100	0	142	29	14	8	47	1.73
4375549--4375609	30	2.1	30	85	11	83	44	1	4	49	1.33
4387680--4387704	12	2.1	12	100	0	50	0	60	8	32	1.26
4390591--4390669	35	2.2	36	82	4	90	36	3	5	54	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4399305--4399353	25	1.9	26	84	12	66	53	2	0	44	1.12
4399366--4399482	53	2.2	54	87	4	166	45	17	14	23	1.85
4400017--4400045	3	9.7	3	100	0	58	0	34	0	65	0.93
4407627--4407780	75	2.0	77	87	5	224	39	3	7	50	1.46
4408475--4408519	14	3.3	14	84	3	65	53	8	4	33	1.52
4408680--4408708	14	2.1	14	100	0	58	34	24	6	34	1.82
4420364--4420432	24	3.0	24	82	6	88	39	20	5	34	1.76
4421470--4421632	3	54.7	3	83	8	199	62	1	1	34	1.14
4421919--4422698	113	6.9	114	88	7	1030	28	18	14	38	1.91
4423239--4423891	52	12.7	52	93	3	1094	37	22	14	24	1.92
4423239--4423891	259	2.6	257	93	3	1106	37	22	14	24	1.92
4424821--4424895	15	4.8	16	73	15	68	0	24	0	76	0.80
4424813--4424881	34	2.0	35	86	13	99	0	28	0	71	0.87
4424855--4424909	4	12.0	5	81	14	50	0	16	0	83	0.64
4424816--4424908	9	10.6	9	74	10	59	0	20	0	79	0.73
4424817--4424909	40	2.4	38	79	11	100	0	20	0	79	0.73
4435255--4435287	12	2.5	14	90	9	52	60	9	6	24	1.49
4437304--4437481	3	58.7	3	84	6	234	61	1	1	35	1.11
4438278--4438348	24	3.0	24	89	0	106	38	21	5	35	1.77
4448218--4448397	43	4.0	43	70	13	146	35	16	16	32	1.91
4457651--4457698	23	2.1	23	88	0	69	45	2	0	52	1.12
4457660--4457697	12	3.2	12	81	7	51	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4466907--4466948	15	2.9	14	86	6	57	42	4	2	50	1.36
4473156--4473260	54	1.9	54	92	0	174	26	19	36	18	1.94
4489319--4489347	7	4.1	7	100	0	58	31	13	13	41	1.84
4498220--4498255	18	2.0	18	88	0	54	50	0	2	47	1.15
4498263--4498307	21	2.1	21	100	0	90	42	4	17	35	1.70
4499573--4499650	39	2.0	39	85	7	106	50	2	1	46	1.23
4499567--4499657	39	2.3	40	77	12	98	50	2	1	46	1.20
4506696--4506773	33	2.4	33	85	8	97	38	0	1	60	1.05
4508493--4508540	21	2.3	21	85	0	60	25	39	12	22	1.89
4508544--4508637	21	4.5	21	92	5	129	18	35	26	20	1.95
4509160--4509256	33	2.9	34	85	3	133	55	4	3	37	1.35
4509158--4509263	34	3.2	33	82	8	133	54	4	2	37	1.36
4509644--4509983	126	2.7	126	99	0	671	31	20	26	21	1.98
4512628--4512663	13	2.9	12	87	4	54	44	0	2	52	1.15
4516680--4516829	81	1.9	81	81	2	185	25	20	23	30	1.98
4524307--4524340	17	2.0	17	88	0	50	52	0	0	47	1.00
4524297--4524352	20	2.8	21	72	8	62	50	0	0	50	1.00
4524595--4525006	207	2.0	209	83	1	524	33	20	22	22	1.97
4529614--4529643	2	15.0	2	100	0	60	50	0	0	50	1.00
4545578--4545698	55	2.2	55	93	0	215	34	14	19	32	1.91
4545954--4545995	22	1.9	22	90	0	66	45	4	2	47	1.36
4549125--4549221	41	2.3	42	84	8	119	46	1	1	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4553942--4553966	5	5.0	5	100	0	50	60	0	0	40	0.97
4563287--4563378	28	3.3	28	75	6	80	34	13	16	35	1.87
4582836--4582880	22	2.0	22	86	4	63	31	33	26	8	1.87
4583883--4584100	103	2.1	103	94	0	391	26	13	24	36	1.92
4584116--4584176	23	2.7	23	79	5	70	21	24	26	27	1.99
4588122--4588155	2	17.5	2	93	6	61	52	0	0	47	1.00
4589262--4589298	16	2.3	16	90	0	56	32	16	8	43	1.77
4600961--4600990	3	9.7	3	92	7	51	66	0	0	33	0.92
4606369--4606409	16	2.5	15	85	14	55	29	7	12	51	1.66
4607301--4607352	21	2.5	21	81	3	61	38	19	25	17	1.93
4607341--4607475	20	6.7	20	76	7	94	33	23	17	25	1.96
4607340--4607475	41	3.3	41	76	6	141	33	23	16	25	1.96
4607924--4607972	20	2.5	20	89	0	71	18	18	26	36	1.94
4609290--4609334	18	2.5	18	88	0	72	26	44	15	13	1.83
4609827--4609882	20	2.8	20	81	2	69	39	21	23	16	1.92
4609871--4609928	14	3.9	14	79	16	71	48	24	17	10	1.78
4609855--4609945	32	2.8	33	94	3	166	47	21	18	12	1.81
4609855--4609950	19	5.6	19	69	25	88	45	21	19	12	1.83
4609962--4610019	14	3.9	14	79	16	71	8	15	25	50	1.73
4609957--4610144	32	5.4	33	80	17	211	12	19	21	45	1.84
4610073--4610128	14	3.7	14	78	17	67	10	16	23	50	1.76
4609964--4610165	109	1.9	109	96	0	377	14	20	21	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4610129--4610184	20	2.8	19	86	7	76	17	25	21	35	1.95
4612051--4612086	14	2.6	14	90	0	54	30	0	22	47	1.52
4612203--4612289	19	4.8	19	87	10	130	48	16	21	13	1.80
4612174--4612289	33	3.4	33	81	11	142	44	18	22	13	1.85
4612308--4612385	20	3.9	20	94	0	138	15	24	24	35	1.94
4613442--4613495	24	2.2	24	90	0	81	24	16	20	38	1.92
4613670--4613694	12	2.1	12	100	0	50	72	0	28	0	0.86
4615979--4616105	33	3.8	33	83	4	175	43	18	22	16	1.88
4615983--4616112	66	2.0	66	96	0	242	43	17	21	17	1.88
4616105--4616194	33	2.7	33	87	0	126	13	20	20	46	1.83

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