genome.fa.s8245.2.7.7.80.10.50.1000.25.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  25  of  33  ( 3922 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)
4979355--4979389	17	1.9	19	88	11	56	80	2	14	2	0.95
4980435--4980498	32	2.0	32	96	0	119	23	15	29	31	1.95
4980616--4980703	34	2.5	34	81	5	95	35	14	9	40	1.78
4980600--4980683	35	2.4	35	80	2	98	32	16	14	36	1.89
4982285--4982334	22	2.3	22	76	13	59	46	4	26	24	1.70
4995103--4995146	22	2.0	22	86	0	61	22	15	15	45	1.85
4998127--4998518	196	2.0	196	98	1	759	32	11	22	33	1.91
4999059--4999104	22	2.1	22	87	0	65	36	15	21	26	1.93
4999766--4999808	21	2.0	22	90	4	70	27	18	30	23	1.98
4999842--4999883	10	4.0	10	82	11	57	21	19	11	47	1.81
4999840--4999883	22	2.0	22	95	0	79	20	18	15	45	1.85
5001782--5002124	134	2.6	132	81	7	424	25	31	17	25	1.97
5002326--5002408	3	28.7	3	92	7	145	34	0	0	65	0.93
5004958--5005363	203	2.0	204	99	0	796	30	15	13	40	1.85
5007181--5007216	19	1.9	18	88	5	54	58	8	5	27	1.50
5007364--5007706	168	2.0	170	98	1	672	42	9	5	41	1.62
5019200--5019245	19	2.3	20	96	3	85	67	0	10	21	1.21
5019200--5019252	20	2.8	19	86	8	72	69	0	9	20	1.15
5023682--5023715	12	2.8	12	95	0	59	29	23	11	35	1.90
5034210--5034313	51	2.0	51	84	0	136	34	29	19	16	1.93
5035641--5035704	3	21.7	3	84	9	69	39	0	0	60	0.97
5035651--5035708	30	1.9	30	89	6	91	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5035980--5036015	19	1.9	19	88	5	56	27	22	22	27	1.99
5036893--5036959	29	2.3	30	80	14	79	31	4	0	64	1.14
5037161--5037217	27	2.1	28	87	9	82	49	0	1	49	1.11
5037692--5037742	20	2.7	20	82	17	65	27	1	1	68	1.11
5037681--5037742	20	3.4	17	82	15	63	25	3	1	69	1.13
5040342--5040420	39	2.0	39	100	0	158	29	22	7	40	1.82
5042534--5042590	7	8.1	7	77	14	55	84	0	15	0	0.63
5042534--5042590	6	9.5	6	83	11	64	84	0	15	0	0.63
5042538--5042583	16	2.8	16	90	9	67	86	0	13	0	0.56
5044857--5045196	115	3.0	115	94	0	565	33	14	20	31	1.93
5047282--5047419	50	2.7	51	79	5	143	38	14	21	25	1.91
5047785--5047839	22	2.5	22	90	0	92	34	10	12	41	1.78
5048238--5049406	113	10.0	113	77	12	876	38	14	19	27	1.91
5048238--5049406	226	5.0	226	84	8	1346	38	14	19	27	1.91
5048647--5048693	20	2.3	20	88	0	67	46	8	23	21	1.78
5048656--5048700	20	2.2	20	96	0	81	37	11	17	33	1.85
5048676--5049400	225	3.1	224	84	7	862	38	14	19	27	1.91
5049086--5049450	124	2.9	124	91	1	581	41	13	17	26	1.88
5049667--5049727	3	20.7	3	80	9	63	39	0	0	60	0.97
5049667--5049736	21	3.2	21	79	15	79	41	0	0	58	0.98
5050012--5050047	19	1.9	19	88	5	56	27	22	22	27	1.99
5051444--5051501	27	2.1	27	84	12	75	50	0	1	48	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5054551--5054601	25	2.0	25	92	0	84	31	5	7	54	1.53
5060554--5060595	10	4.4	10	76	11	52	0	69	0	30	0.89
5060557--5060603	14	3.4	14	96	0	85	0	68	0	31	0.90
5060554--5060601	20	2.4	20	82	0	60	0	68	0	31	0.90
5060325--5060801	249	1.9	245	86	3	679	29	20	12	37	1.90
5063631--5063660	16	1.9	15	93	6	51	70	6	3	20	1.25
5065939--5066056	61	1.9	61	92	0	200	38	16	19	25	1.92
5067614--5067638	13	1.9	13	100	0	50	8	8	40	44	1.63
5079537--5079619	24	3.5	24	81	3	69	44	16	14	24	1.85
5081910--5081976	13	5.4	13	70	15	52	32	22	26	17	1.96
5081984--5082024	18	2.3	18	86	0	55	14	19	43	21	1.87
5082001--5082040	13	3.0	13	85	7	53	17	20	42	20	1.89
5082001--5082042	14	3.1	14	86	3	59	19	21	40	19	1.92
5083044--5083089	21	2.3	20	85	7	58	30	15	17	36	1.91
5083054--5083184	21	6.1	21	74	7	84	25	12	23	37	1.91
5097095--5097132	17	2.2	17	90	0	58	57	0	28	13	1.36
5097476--5097513	16	2.4	16	100	0	76	15	28	10	44	1.80
5101635--5102106	233	2.0	234	97	0	910	28	27	15	29	1.96
5102559--5102605	12	4.1	12	81	10	53	46	21	14	17	1.83
5103223--5103276	23	2.3	23	93	0	90	38	18	12	29	1.88
5104083--5105012	500	1.8	509	83	7	1241	30	20	9	39	1.84
5110389--5110446	27	2.1	27	84	6	73	32	13	12	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5115827--5115989	21	7.7	21	71	5	112	26	14	22	37	1.92
5115827--5115989	42	3.8	42	74	7	141	26	14	22	37	1.92
5119385--5119438	25	2.1	27	83	10	69	37	1	1	59	1.19
5119442--5119485	13	3.3	13	81	6	61	36	0	0	63	0.95
5119433--5119494	27	2.6	22	75	22	70	41	1	0	56	1.09
5119440--5119496	27	2.1	27	96	0	105	42	1	0	56	1.10
5119442--5119493	13	3.9	13	80	5	59	38	1	0	59	1.08
5119564--5119602	13	2.9	14	84	7	53	51	0	10	38	1.36
5121650--5121732	31	2.7	31	75	18	84	73	1	0	25	0.90
5122081--5122205	50	2.5	49	88	3	169	15	35	31	18	1.92
5127804--5128024	110	2.0	111	92	0	372	46	8	9	36	1.66
5128149--5128188	20	2.1	19	90	4	62	40	0	27	32	1.57
5130034--5130076	19	2.2	20	83	4	52	53	0	18	27	1.45
5156484--5156544	27	2.4	25	76	15	61	59	0	3	37	1.14
5156516--5156595	36	2.2	38	84	8	103	63	0	0	36	0.94
5156566--5156605	20	2.0	20	85	0	53	55	2	2	40	1.27
5160833--5160878	24	1.9	24	86	0	65	41	0	8	50	1.33
5162406--5162534	44	3.0	44	84	2	152	31	24	17	25	1.97
5162508--5162556	21	2.3	21	92	0	80	36	28	16	18	1.92
5163417--5163474	20	2.8	22	75	20	70	27	29	13	29	1.94
5165596--5165672	31	2.4	32	76	8	86	27	28	27	16	1.97
5173128--5173220	21	4.3	21	76	15	73	29	25	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5173114--5173199	44	2.0	44	88	0	127	26	24	23	25	2.00
5173113--5173182	21	3.2	21	70	21	63	25	21	24	28	1.99
5173172--5173242	21	3.4	21	90	0	97	30	28	18	22	1.97
5178435--5178494	19	3.1	19	75	22	61	33	25	20	21	1.97
5179407--5179458	21	2.5	21	93	0	86	30	26	11	30	1.92
5181919--5181967	20	2.5	20	86	3	64	30	12	4	53	1.57
5183146--5183186	21	1.9	22	90	5	66	26	17	14	41	1.88
5191369--5191418	26	2.0	24	84	7	64	40	0	2	58	1.10
5191733--5191798	30	2.2	30	81	10	82	34	19	15	30	1.93
5192057--5192114	23	2.5	24	82	2	73	46	22	3	27	1.68
5192462--5192494	17	1.9	17	93	0	57	48	15	0	36	1.45
5192573--5192613	12	3.2	12	80	12	55	41	0	24	34	1.55
5192567--5192616	13	3.8	13	73	19	50	40	0	22	38	1.54
5192938--5192964	2	13.5	2	100	0	54	51	0	0	48	1.00
5196288--5196349	16	3.9	17	73	14	51	27	12	24	35	1.92
5196295--5196374	31	2.6	31	85	0	97	25	15	26	33	1.95
5196937--5196975	15	2.5	16	83	8	53	10	17	23	48	1.78
5200831--5200880	25	2.0	25	100	0	100	28	20	20	32	1.97
5201374--5201426	20	2.8	19	83	8	63	24	16	11	47	1.80
5203950--5203987	20	1.9	19	89	5	58	26	21	26	26	1.99
5208892--5208943	20	2.6	20	90	0	77	25	26	23	25	2.00
5209648--5209677	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5210627--5210655	15	1.9	15	100	0	58	62	0	27	10	1.28
5211216--5211258	19	2.2	20	87	4	61	48	6	9	34	1.62
5214573--5214627	22	2.6	22	83	11	71	0	16	3	80	0.86
5214572--5214627	19	2.6	22	83	10	73	0	16	3	80	0.85
5214574--5214622	7	7.1	7	81	9	57	0	14	2	83	0.73
5215375--5215417	19	2.2	20	87	4	61	48	6	9	34	1.62
5220896--5220924	2	14.5	2	100	0	58	48	0	0	51	1.00
5221008--5221045	2	19.0	2	100	0	76	50	0	0	50	1.00
5221691--5221740	25	2.0	25	84	0	64	42	12	12	34	1.79
5222603--5222639	12	3.0	13	80	15	51	56	16	8	18	1.64

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