genome.fa.s8539.2.7.7.80.10.50.1000.24.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  24  of  31  ( 3630 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)
4537560--4537626	30	2.2	30	86	5	91	52	22	7	17	1.70
4552700--4552777	41	1.9	41	89	0	120	53	15	19	11	1.71
4558817--4558857	20	2.0	20	85	9	55	51	7	14	26	1.69
4559003--4559061	21	2.8	21	84	0	82	25	20	28	25	1.99
4559794--4559837	22	2.0	21	86	4	61	18	25	31	25	1.97
4559883--4559928	22	2.1	22	95	0	83	21	17	13	47	1.81
4574465--4574502	19	2.0	19	100	0	76	21	21	10	47	1.80
4587416--4587484	23	3.0	23	82	0	93	31	26	23	18	1.97
4600321--4600402	23	3.6	23	86	0	101	41	6	14	37	1.71
4600433--4600492	23	2.6	23	91	0	75	36	8	20	35	1.82
4600355--4600641	87	3.3	87	87	0	394	41	9	13	35	1.77
4604510--4604543	17	1.9	18	88	5	52	76	5	0	17	0.98
4604956--4604993	20	1.9	19	85	15	51	31	5	2	60	1.33
4605011--4605036	13	2.0	13	100	0	52	38	23	0	38	1.55
4605047--4605103	2	28.5	2	100	0	114	50	0	0	49	1.00
4605748--4605808	16	3.9	15	85	14	63	22	22	9	44	1.82
4605746--4605808	32	2.0	32	84	12	85	22	22	11	44	1.84
4606067--4606113	14	3.7	14	71	26	50	44	0	4	51	1.21
4606066--4606115	23	2.1	24	96	3	93	48	0	4	48	1.20
4607363--4607402	20	2.0	21	85	14	57	42	5	7	45	1.54
4607619--4607780	65	2.5	65	85	1	209	32	25	14	27	1.95
4615968--4616007	20	2.0	21	85	14	57	45	5	5	45	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4616223--4616384	65	2.5	65	85	1	209	31	25	15	27	1.96
4627974--4628021	17	2.8	17	84	6	62	16	43	20	18	1.88
4628058--4628125	29	2.3	29	84	0	82	25	7	25	42	1.80
4635435--4635469	17	2.0	18	88	5	54	17	45	22	14	1.84
4635477--4635553	29	2.7	29	85	4	93	24	9	23	42	1.83
4635506--4635573	29	2.3	29	82	0	82	27	7	22	42	1.80
4637795--4637836	20	2.2	20	95	4	77	23	30	0	45	1.53
4638053--4638107	2	27.5	2	82	14	69	50	3	1	43	1.30
4638292--4638330	17	2.2	18	86	9	53	43	0	28	28	1.55
4638292--4638343	19	2.8	18	83	11	61	42	0	30	26	1.56
4638292--4638346	20	2.9	19	84	7	60	43	0	30	25	1.55
4638653--4638679	14	1.9	14	100	0	54	44	11	0	44	1.39
4638853--4638888	15	2.4	15	95	0	63	41	2	5	50	1.40
4638807--4638902	15	6.4	15	75	9	54	45	5	2	46	1.37
4638956--4639175	13	16.3	13	67	20	80	43	4	5	47	1.44
4639010--4639168	18	8.3	18	73	16	115	43	3	5	48	1.40
4638954--4639156	98	2.1	99	89	2	311	43	4	5	46	1.46
4648858--4648888	7	4.4	7	91	0	53	64	9	25	0	1.24
4649236--4649266	15	2.1	15	93	0	53	54	0	0	45	0.99
4653152--4653206	24	2.3	24	93	0	92	41	14	27	16	1.87
4653840--4653892	21	2.5	21	84	0	70	20	26	18	33	1.96
4653882--4654036	20	7.7	20	81	8	197	39	20	19	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4653899--4653969	21	3.5	20	77	11	81	43	19	16	19	1.88
4653882--4654054	41	4.3	41	88	5	235	38	20	19	21	1.94
4653882--4654034	61	2.5	60	82	9	184	39	20	19	20	1.93
4654232--4654297	22	3.0	22	86	0	96	24	39	16	19	1.92
4654634--4654702	20	3.5	20	88	2	104	11	15	23	49	1.77
4654667--4654710	20	2.2	20	87	0	61	13	13	20	52	1.74
4655662--4655823	61	2.7	61	92	0	254	35	19	4	40	1.73
4655732--4655824	30	3.1	30	68	20	93	32	22	6	38	1.80
4655705--4655804	31	3.3	30	68	18	80	38	23	5	34	1.76
4656066--4656103	3	12.7	3	100	0	76	65	0	0	34	0.93
4658592--4658626	16	2.2	16	100	0	70	5	17	20	57	1.60
4663566--4663604	2	19.5	2	100	0	78	51	0	0	48	1.00
4664685--4664728	3	16.0	3	82	17	51	29	0	2	68	1.02
4664682--4664728	16	3.0	16	81	3	60	29	0	2	68	1.02
4664675--4664718	23	2.0	23	91	8	74	22	0	4	72	1.02
4665857--4665913	28	2.1	27	86	3	78	33	5	1	59	1.30
4665877--4665934	24	2.4	24	77	11	57	31	5	1	62	1.27
4670756--4670861	7	13.9	7	79	14	95	78	0	16	4	0.92
4670749--4670864	8	14.5	8	71	16	89	78	0	17	4	0.91
4670755--4670871	31	3.7	31	82	12	114	77	0	17	4	0.92
4670752--4670871	17	6.9	17	73	16	95	77	0	18	4	0.92
4671377--4671439	32	2.0	32	90	0	99	44	19	17	19	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4673765--4673920	31	5.0	31	93	1	260	37	21	19	21	1.95
4674098--4674144	23	2.0	24	91	4	78	34	21	0	44	1.52
4674698--4674742	21	2.1	21	87	0	63	15	24	28	31	1.96
4676467--4676533	35	1.9	35	87	6	100	31	11	23	32	1.91
4678034--4678088	22	2.5	22	87	0	83	34	10	14	40	1.81
4678889--4679423	113	4.7	113	87	2	685	37	13	19	29	1.90
4678884--4679421	229	2.4	227	84	5	688	37	13	19	28	1.90
4679948--4679992	16	2.6	17	86	10	56	35	2	4	57	1.31
4680356--4680395	11	3.3	13	80	13	50	50	2	0	47	1.14
4682718--4683056	167	2.0	167	91	2	556	29	14	11	43	1.81
4696666--4696696	13	2.4	13	100	0	62	16	0	25	58	1.38
4705782--4705844	19	3.1	19	70	20	56	50	0	1	47	1.10
4705781--4705870	42	2.1	42	82	13	114	48	0	2	48	1.13
4705997--4706043	24	2.0	24	83	8	60	46	0	2	51	1.13
4706165--4706214	13	3.8	13	73	19	50	50	2	2	46	1.24
4706627--4706667	14	3.0	14	82	3	57	48	4	0	46	1.23
4710204--4710377	44	4.0	44	84	4	217	25	20	12	42	1.86
4716357--4716716	42	8.7	42	77	7	295	32	21	18	28	1.96
4716502--4716566	20	3.2	20	69	16	60	29	21	23	26	1.99
4716359--4716966	122	4.9	120	79	8	415	32	20	17	29	1.95
4716636--4716712	22	3.6	22	67	19	63	35	20	15	28	1.94
4716512--4716966	122	3.7	121	85	4	606	32	20	16	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4716885--4716972	42	2.1	42	89	0	131	32	18	19	29	1.95
4720588--4720665	23	3.3	23	83	1	93	34	23	17	24	1.96
4720675--4720890	103	2.1	104	94	0	380	37	23	12	26	1.91
4728251--4728285	2	17.5	2	100	0	70	51	0	0	48	1.00
4729368--4729432	31	2.1	31	91	0	103	20	21	12	46	1.83
4732046--4732124	21	3.8	21	69	14	65	51	15	0	32	1.43
4732310--4732349	15	2.7	15	84	0	53	55	10	0	35	1.34
4732867--4732976	43	2.5	44	85	2	132	49	8	19	23	1.75
4734210--4734283	22	3.3	22	66	14	60	48	8	0	43	1.32
4734212--4734292	27	3.3	27	62	31	72	46	8	0	44	1.34
4734203--4734296	46	2.0	46	97	0	179	47	8	0	43	1.33
4734863--4734926	19	3.2	20	72	14	53	43	1	1	53	1.19
4734872--4734921	20	2.5	20	78	12	59	40	2	2	56	1.22
4734839--4734925	31	2.8	30	79	10	95	41	1	3	54	1.25
4735647--4735734	20	4.4	19	72	20	63	52	2	1	44	1.21
4735642--4735728	31	2.8	31	79	10	97	54	2	1	42	1.20
4735637--4735704	19	3.5	20	75	15	63	54	0	2	42	1.15
4740952--4740981	13	2.2	14	94	5	53	0	0	16	83	0.65
4743701--4743733	16	2.1	16	100	0	66	36	0	18	45	1.49
4746266--4746312	21	2.2	22	92	3	78	23	34	23	19	1.97
4746862--4746912	22	2.2	23	82	10	68	31	27	17	23	1.97
4746873--4746935	22	3.0	22	82	17	98	26	28	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4746873--4746929	18	2.9	18	89	10	78	26	31	22	19	1.98
4748365--4748410	21	2.2	21	96	0	83	17	45	4	32	1.68
4749316--4749377	23	2.7	23	76	0	70	32	22	25	19	1.97
4749896--4750109	106	2.0	106	100	0	428	34	17	3	44	1.66
4750499--4750527	2	14.5	2	100	0	58	48	51	0	0	1.00
4751050--4751107	24	2.7	20	78	10	62	24	25	18	31	1.98
4754753--4754819	23	2.9	23	81	0	89	31	25	25	17	1.97
4756642--4756697	21	2.7	21	100	0	112	32	16	8	42	1.79
4761593--4761655	22	3.0	22	75	17	80	28	26	20	23	1.99
4761613--4761649	18	2.1	18	89	0	56	29	29	18	21	1.97

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