genome.fa.s8488.2.7.7.80.10.50.1000.20.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   52   53   54   

This is table  20  of  54  ( 6450 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)
5016642--5016713	24	3.0	24	83	4	83	61	9	9	19	1.55
5016680--5016734	24	2.2	25	87	9	78	61	5	5	27	1.40
5022136--5022209	32	2.3	31	77	9	78	22	27	28	21	1.99
5028240--5028294	21	2.6	21	85	8	67	32	12	14	40	1.84
5031862--5031901	21	1.9	21	89	0	62	37	15	10	37	1.80
5031860--5031907	21	2.3	21	81	0	60	33	20	8	37	1.83
5035725--5035775	22	2.6	19	75	19	50	27	5	9	56	1.54
5037429--5037473	23	2.0	23	90	0	72	24	26	26	22	2.00
5037441--5037754	149	2.1	148	90	2	488	35	21	16	26	1.95
5039336--5039496	64	2.5	63	84	8	191	26	22	18	32	1.97
5040588--5040626	20	1.9	21	89	5	62	35	23	0	41	1.55
5042845--5042889	23	2.0	23	86	0	63	26	26	24	22	2.00
5042857--5043170	149	2.1	148	90	2	488	35	21	16	26	1.95
5044752--5044912	64	2.5	63	84	8	191	26	22	18	32	1.97
5047104--5047164	29	2.1	28	82	8	70	42	1	0	55	1.09
5052576--5052872	165	1.8	165	87	1	443	38	12	21	27	1.90
5053066--5053114	8	5.9	8	80	17	55	85	0	8	6	0.73
5053064--5053116	17	3.0	17	86	10	63	84	0	9	5	0.76
5053086--5053114	15	1.9	15	100	0	58	89	0	10	0	0.48
5053064--5053115	9	6.0	9	78	13	56	84	0	9	5	0.77
5055244--5055463	114	1.9	114	92	0	368	33	15	21	30	1.94
5057963--5058035	22	3.3	22	96	0	137	32	12	13	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5058533--5058857	168	2.0	165	94	1	569	35	13	12	39	1.82
5058861--5059072	76	2.8	76	97	0	406	23	20	22	33	1.97
5059197--5059405	75	2.8	75	93	2	366	23	19	22	33	1.97
5059522--5059714	76	2.6	76	93	2	327	24	19	21	34	1.96
5059647--5059842	46	4.3	46	92	2	306	22	20	21	35	1.96
5060001--5060054	3	17.3	3	77	7	54	42	0	0	57	0.98
5059976--5060061	6	13.8	6	82	9	75	47	0	0	52	1.00
5061227--5061266	15	2.7	15	84	0	53	50	2	2	45	1.28
5061483--5061529	25	2.0	25	87	8	71	42	0	0	57	0.98
5061502--5061832	164	2.0	165	95	2	603	38	11	12	36	1.80
5069962--5070014	22	2.4	22	96	0	97	49	9	13	28	1.73
5076340--5076379	16	2.5	16	100	0	80	52	20	5	22	1.65
5078085--5078140	20	2.8	20	97	2	103	19	12	35	32	1.89
5081449--5081520	36	2.0	36	91	0	117	45	22	9	22	1.81
5091894--5091976	43	1.9	43	90	0	130	30	20	22	26	1.98
5094017--5094055	21	1.9	21	89	5	62	28	12	20	38	1.89
5099512--5099686	82	2.1	82	86	0	242	31	14	19	34	1.92
5106668--5106700	3	11.0	3	93	0	57	3	30	0	66	1.06
5113732--5113758	13	2.1	13	100	0	54	37	14	25	22	1.93
5113769--5113795	4	6.8	4	100	0	54	25	0	0	74	0.83
5119215--5119270	21	2.6	22	77	2	69	39	8	21	30	1.84
5121788--5121858	30	2.4	30	85	0	88	26	23	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5127029--5127211	90	2.0	91	84	3	235	21	26	23	27	1.99
5129106--5129173	30	2.3	30	79	5	75	23	22	22	32	1.98
5133100--5133125	8	3.2	8	100	0	52	53	0	11	34	1.37
5133823--5133878	14	4.0	14	80	11	53	32	28	17	21	1.96
5133829--5133878	13	3.6	14	83	5	57	32	28	16	24	1.96
5138557--5138610	17	3.4	17	65	19	53	31	31	12	24	1.93
5138551--5138622	30	2.4	30	100	0	144	27	29	13	29	1.95
5141096--5141269	90	1.9	90	88	4	262	22	22	24	30	1.99
5144956--5144989	17	2.0	17	88	0	50	41	11	5	41	1.66
5149310--5149382	30	2.4	30	81	2	83	61	8	5	24	1.45
5152722--5152826	36	2.9	36	88	0	147	51	15	10	22	1.73
5156746--5156784	18	2.2	18	100	0	78	17	51	20	10	1.74
5157919--5157948	13	2.3	13	88	0	51	16	43	23	16	1.87
5157897--5157942	18	2.6	18	92	0	74	19	50	19	10	1.77
5159495--5159610	24	4.8	24	89	4	162	25	15	18	39	1.91
5161811--5161840	13	2.3	13	88	0	51	16	43	23	16	1.87
5161789--5161834	18	2.6	18	92	0	74	19	50	19	10	1.77
5163389--5163504	24	4.8	24	87	4	153	25	16	17	41	1.89
5163446--5163511	24	2.8	24	86	2	80	22	15	16	45	1.85
5165554--5165614	22	2.6	22	82	15	61	31	0	1	67	1.01
5165610--5165676	27	2.4	28	85	5	82	37	0	4	58	1.19
5165597--5165669	35	2.1	34	84	2	92	38	0	4	57	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5166951--5166991	17	2.4	17	81	18	50	7	7	7	78	1.11
5169488--5169656	31	5.5	31	85	4	209	47	11	4	36	1.60
5169488--5169656	60	2.8	60	82	5	187	47	11	4	36	1.60
5171147--5171187	20	2.0	21	90	4	66	60	12	4	21	1.50
5173767--5173814	25	2.0	25	84	12	64	52	12	12	22	1.73
5186501--5186544	16	2.7	16	89	3	61	75	11	4	9	1.19
5186514--5186546	16	2.1	16	100	0	66	69	18	6	6	1.30
5186546--5186578	12	2.8	12	82	17	50	72	0	0	27	0.85
5188400--5188497	39	2.5	39	96	0	178	18	24	14	42	1.87
5188293--5188458	91	1.8	91	89	0	260	24	19	16	39	1.91
5188439--5188874	91	4.8	91	93	2	745	23	22	16	37	1.93
5188309--5188588	130	2.2	130	94	0	488	22	22	15	40	1.91
5188439--5188874	179	2.4	180	92	1	741	23	22	16	37	1.93
5189601--5189707	54	1.9	56	84	3	146	39	18	9	32	1.83
5189588--5189707	55	2.2	56	82	5	147	36	19	9	35	1.83
5190284--5190417	52	2.4	55	84	10	168	38	22	10	28	1.87
5191740--5191814	28	2.7	28	80	0	87	22	4	30	42	1.72
5192484--5192552	10	7.0	10	74	9	61	2	15	1	79	0.92
5192503--5192545	17	2.6	16	78	10	50	2	18	0	79	0.85
5192484--5192551	19	3.5	19	77	18	68	2	16	1	79	0.93
5192503--5192553	9	5.6	9	80	11	50	1	19	0	78	0.85
5192486--5192558	15	4.9	14	76	15	67	2	17	1	78	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5203671--5203793	29	4.3	29	72	8	110	39	21	5	33	1.77
5203760--5203825	33	2.0	33	84	0	87	43	27	6	22	1.76
5203836--5203921	8	11.5	8	74	19	71	22	22	40	15	1.90
5203864--5203891	13	2.2	13	100	0	56	14	21	46	17	1.84
5210934--5211099	84	2.0	85	85	3	228	42	19	4	33	1.73
5210944--5211071	29	4.5	29	75	7	120	42	20	5	32	1.75
5211145--5211186	8	5.6	8	81	16	54	26	16	42	14	1.86
5211144--5211188	21	2.1	21	95	0	81	24	17	42	15	1.88
5213015--5213086	7	10.3	7	76	0	54	50	27	0	22	1.50
5213021--5213081	21	2.9	21	90	0	95	50	24	0	24	1.49
5213255--5213299	7	6.3	7	89	2	54	26	0	28	44	1.55
5213255--5213299	21	2.1	22	87	4	65	26	0	28	44	1.55
5213719--5213749	16	1.9	16	93	0	53	41	12	3	41	1.59
5217699--5217729	15	2.1	15	93	0	53	54	0	0	45	0.99
5220217--5220254	14	2.7	15	84	12	53	68	0	0	31	0.90
5220440--5220467	14	2.0	14	100	0	56	50	7	0	42	1.30
5227669--5227733	2	33.0	2	96	3	123	49	0	0	50	1.00
5228313--5228428	60	1.9	60	89	0	178	31	14	12	41	1.83
5231470--5231542	33	2.2	33	100	0	146	45	19	5	30	1.73
5232696--5232761	33	2.0	33	93	0	114	33	12	18	36	1.88
5237926--5238061	71	1.9	71	83	0	173	29	17	15	37	1.91
5237943--5238061	35	3.4	34	71	11	96	28	15	16	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5240490--5240556	19	3.5	19	72	13	57	73	8	1	16	1.16
5242411--5242477	22	3.3	22	65	26	65	16	22	16	44	1.86
5242389--5242486	39	2.5	39	98	0	187	18	20	15	45	1.85
5242402--5242467	17	3.2	23	64	28	65	19	19	16	43	1.88
5242298--5242576	130	2.2	130	92	0	461	21	20	17	40	1.91
5242428--5242777	181	1.9	182	91	0	567	23	22	17	36	1.94
5242428--5242777	91	3.9	91	91	0	558	23	22	17	36	1.94
5244751--5244861	9	11.9	9	80	13	68	6	16	0	77	0.96
5244749--5244849	18	5.8	17	81	13	91	5	15	0	78	0.94
5244756--5244849	9	10.8	9	78	15	74	6	14	0	78	0.93

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   52   53   54