genome.fa.s9175.2.7.7.80.10.50.1000.22.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  22  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)
4364484--4364539	3	19.0	3	78	14	55	67	0	1	30	1.01
4364487--4364526	10	4.0	10	86	0	53	62	0	2	35	1.09
4364484--4364539	13	4.8	12	82	12	55	67	0	1	30	1.01
4364498--4364553	17	3.1	17	85	15	60	73	0	0	26	0.84
4370280--4370378	49	2.0	49	100	0	198	32	9	14	44	1.76
4379813--4379897	42	2.0	42	81	0	98	32	18	12	35	1.89
4391026--4391065	2	20.0	2	100	0	80	50	0	0	50	1.00
4391860--4391884	2	12.5	2	100	0	50	48	0	0	52	1.00
4391855--4391941	29	2.9	29	78	13	79	48	2	0	49	1.13
4391911--4391954	23	1.9	23	100	0	88	52	4	0	43	1.22
4392386--4392468	36	2.3	35	83	6	94	53	1	0	45	1.08
4392838--4392869	14	2.3	14	94	0	55	31	0	0	68	0.90
4392829--4392887	24	2.4	25	80	5	59	33	0	3	62	1.12
4394020--4394102	39	2.1	39	86	0	112	34	19	26	19	1.95
4397310--4397342	16	2.1	16	94	0	57	33	6	27	33	1.81
4405496--4405534	2	19.5	2	100	0	78	51	0	0	48	1.00
4405816--4405873	19	3.0	20	74	5	73	27	5	31	36	1.79
4408059--4408134	35	2.2	35	92	0	125	46	28	7	17	1.76
4408139--4408188	18	2.8	18	87	0	73	18	28	14	40	1.89
4408138--4408197	18	3.3	18	83	0	66	21	28	13	36	1.91
4409869--4409895	2	13.5	2	100	0	54	51	0	0	48	1.00
4415910--4415944	15	2.3	15	90	0	52	37	25	8	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4416001--4416135	45	3.0	45	97	0	252	33	10	22	33	1.88
4417735--4417851	36	3.2	36	91	1	189	29	19	12	38	1.89
4417871--4417934	22	3.2	22	62	33	54	26	17	14	42	1.87
4417736--4418344	139	4.5	136	92	2	920	26	19	11	42	1.85
4418006--4418128	34	3.4	35	80	10	142	27	18	10	43	1.83
4418143--4418224	36	2.3	36	80	2	94	29	21	7	41	1.80
4418194--4418260	34	1.9	35	90	3	109	17	22	11	47	1.80
4418178--4418393	99	2.1	101	83	5	260	26	19	9	43	1.82
4418290--4418358	34	2.0	34	85	0	93	21	20	15	42	1.89
4420044--4420083	3	13.3	3	100	0	80	32	0	0	67	0.91
4420175--4420275	41	2.4	42	74	11	98	14	7	2	74	1.17
4422146--4422205	29	2.1	29	100	0	120	31	18	13	36	1.89
4427145--4427199	12	4.6	12	93	0	92	20	52	1	25	1.56
4432572--4432612	21	2.0	21	90	0	64	21	19	17	41	1.90
4436122--4436303	60	3.1	60	82	3	201	25	20	17	36	1.94
4438034--4438084	21	2.4	21	93	0	93	25	17	17	39	1.92
4439022--4439065	22	2.0	22	83	16	56	52	9	4	34	1.54
4439648--4439699	21	2.5	21	81	3	61	38	19	25	17	1.93
4439688--4439801	20	5.7	20	83	6	113	31	25	18	24	1.97
4439685--4439801	61	1.9	61	85	0	162	33	24	17	23	1.97
4440320--4440375	19	2.9	19	86	2	85	48	23	17	10	1.79
4440387--4440547	20	8.8	19	72	16	126	12	21	21	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4440435--4440522	33	2.6	33	90	1	131	12	25	23	38	1.90
4442433--4442516	42	2.0	42	83	0	105	22	38	16	22	1.93
4442489--4442555	21	3.2	21	66	6	55	23	35	20	19	1.95
4443914--4443949	14	2.6	14	95	0	63	30	0	25	44	1.54
4444128--4444212	19	4.7	19	69	15	63	14	23	21	41	1.89
4446485--4446509	12	2.1	12	100	0	50	0	28	0	72	0.86
4446684--4446737	24	2.2	24	90	0	81	38	20	16	24	1.92
4447755--4447805	20	2.5	20	100	0	102	33	27	23	15	1.95
4447836--4447889	14	3.5	14	73	22	54	12	20	18	48	1.81
4447818--4447888	33	2.2	33	81	0	79	21	19	19	39	1.93
4447831--4447897	33	2.0	33	88	0	98	14	22	17	44	1.86
4447874--4447911	20	1.9	20	94	0	67	15	21	23	39	1.92
4447997--4448033	14	2.6	14	86	0	56	48	21	0	29	1.50
4449908--4449974	19	3.5	19	81	4	80	37	22	23	16	1.94
4449963--4450052	14	5.9	14	76	19	90	47	26	17	7	1.75
4449947--4450068	14	7.3	18	70	22	88	46	25	18	9	1.79
4449947--4450068	32	3.8	32	93	2	199	46	25	18	9	1.79
4449889--4450068	14	10.3	18	72	17	87	43	25	18	12	1.85
4450086--4450143	14	3.9	14	79	16	71	10	17	24	48	1.78
4450073--4450159	32	2.7	33	94	3	158	12	18	21	47	1.82
4450144--4450198	20	2.8	19	83	8	65	16	23	23	36	1.94
4450686--4450730	18	2.5	18	88	0	72	13	15	44	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4452026--4452063	20	1.9	20	88	0	58	50	21	15	13	1.78
4452320--4452368	22	2.3	21	86	10	73	26	12	38	22	1.89
4452326--4452369	22	2.0	22	95	0	79	25	13	38	22	1.91
4452558--4452606	20	2.5	20	89	0	71	26	18	24	30	1.98
4452621--4452713	20	4.6	20	78	4	96	17	24	18	39	1.91
4452614--4452713	41	2.5	41	96	3	186	18	23	17	42	1.89
4453051--4453098	20	2.5	20	96	3	89	29	14	4	52	1.60
4454340--4454382	21	2.0	21	82	8	52	34	16	9	39	1.80
4457372--4457434	23	3.0	20	71	15	63	52	15	4	26	1.63
4457529--4457582	29	1.9	27	92	3	81	53	11	12	22	1.70
4460754--4460797	20	2.1	22	87	8	65	31	0	11	56	1.35
4460884--4460918	17	2.0	18	88	5	54	48	2	0	48	1.16
4461411--4461445	16	2.2	16	90	10	54	31	2	0	65	1.07
4461887--4461937	25	2.1	24	85	10	68	35	0	25	39	1.56
4482998--4483040	20	2.2	20	86	0	59	32	23	13	30	1.93
4486709--4486734	2	13.0	2	100	0	52	50	0	0	50	1.00
4486760--4486787	10	2.8	10	100	0	56	17	0	0	82	0.68
4486863--4486990	51	2.5	51	87	1	166	26	12	14	46	1.79
4492409--4492484	32	2.4	32	100	0	152	23	13	21	42	1.88
4497851--4497883	17	1.9	17	88	11	50	42	0	27	30	1.56
4500769--4500816	2	24.0	2	100	0	96	50	0	0	50	1.00
4502804--4503387	54	10.8	54	91	0	889	35	17	13	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4506102--4506170	23	3.0	23	86	0	93	26	24	27	21	1.99
4506186--4506398	103	2.1	103	93	0	363	37	22	13	26	1.92
4508075--4508119	21	2.1	21	87	0	63	15	24	28	31	1.96
4508984--4509010	2	13.5	2	100	0	54	48	0	0	51	1.00
4511321--4511389	23	3.0	23	89	0	102	26	26	27	20	1.99
4511405--4511617	103	2.1	103	95	0	381	36	23	14	26	1.93
4513282--4513326	21	2.1	21	84	8	56	17	24	26	31	1.97
4518255--4518292	3	12.3	3	84	15	51	34	0	0	65	0.93
4525493--4525523	6	5.2	6	100	0	62	0	64	0	35	0.94
4533579--4533617	2	19.5	2	100	0	78	51	0	0	48	1.00
4534006--4534045	21	1.9	21	84	0	53	42	15	12	30	1.83
4537274--4537336	23	2.5	24	80	10	74	50	3	7	38	1.47
4538345--4538414	20	3.4	20	72	14	52	62	0	2	34	1.10
4538713--4538757	9	4.7	9	82	15	54	57	0	2	40	1.11
4538881--4538941	30	2.1	30	84	9	81	32	8	3	55	1.45
4547069--4547122	2	27.0	2	96	0	99	48	0	0	51	1.00
4548214--4548246	16	2.0	17	94	5	59	24	0	6	69	1.10
4548326--4548356	14	2.2	14	94	0	53	25	9	0	64	1.24
4548396--4548507	13	8.5	13	69	16	52	14	10	2	72	1.22
4548464--4548497	17	2.0	17	94	0	59	14	8	0	76	1.01
4548465--4548527	21	2.6	25	85	11	80	14	12	1	71	1.22
4552218--4552396	95	1.9	95	92	2	306	31	18	18	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4553766--4553808	21	2.0	22	95	4	79	34	18	4	41	1.71
4553948--4554108	36	4.6	36	72	14	149	26	20	12	40	1.88
4553786--4554108	101	3.2	101	88	2	488	28	18	12	40	1.88
4554091--4554126	18	2.0	18	100	0	72	27	22	11	38	1.88
4554044--4554118	36	2.1	35	80	7	80	26	20	12	41	1.87
4554155--4554246	33	2.8	33	91	1	157	38	18	9	33	1.84
4555636--4555666	14	2.2	14	94	0	53	25	9	0	64	1.24
4555762--4555822	21	2.6	22	82	14	70	14	11	1	72	1.20
4555761--4555794	17	2.0	17	94	0	59	14	8	0	76	1.01
4555762--4555828	25	2.8	25	85	12	81	14	10	1	73	1.17

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