genome.fa.s8495.2.7.7.80.10.50.1000.19.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  19  of  21  ( 2505 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)
4513205--4515074	165	11.3	165	79	6	1722	25	19	24	30	1.98
4513205--4515056	249	7.5	249	88	1	2575	25	19	24	30	1.98
4513223--4515056	741	2.5	742	88	2	2671	25	19	24	30	1.98
4516219--4516432	95	2.4	89	81	12	253	31	20	19	29	1.97
4519169--4519250	29	2.7	30	77	11	87	76	2	6	14	1.07
4519228--4519351	42	2.9	40	72	18	99	64	4	1	29	1.21
4519252--4519343	38	2.3	40	82	12	111	63	5	1	30	1.24
4519329--4519366	2	19.0	2	100	0	76	50	0	0	50	1.00
4525814--4525874	24	2.5	26	77	17	69	55	0	0	44	0.99
4525832--4525871	19	2.1	19	85	0	53	55	0	0	45	0.99
4530252--4530779	111	4.8	111	91	2	785	31	11	10	45	1.75
4531234--4531691	110	4.2	110	89	4	681	32	12	10	45	1.75
4530299--4532689	911	2.6	909	90	3	3757	35	10	10	43	1.74
4532183--4532582	111	3.6	111	90	2	599	31	10	12	46	1.75
4532183--4532582	221	1.8	221	88	2	624	31	10	12	46	1.75
4533055--4533115	23	2.7	23	89	0	86	37	11	6	44	1.67
4532976--4533201	109	2.1	110	88	0	328	33	13	11	42	1.79
4539805--4539861	29	2.0	29	83	13	73	50	0	0	49	1.00
4539795--4539907	40	2.9	36	75	14	93	50	1	0	47	1.11
4539794--4539925	19	6.8	19	67	13	72	53	1	0	44	1.09
4539835--4539907	39	1.9	39	83	8	98	49	1	0	49	1.09
4543142--4543180	3	13.7	3	89	10	64	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4544295--4544335	19	2.2	19	90	0	64	31	12	43	12	1.79
4547392--4547530	55	2.5	54	84	4	170	41	12	22	23	1.88
4547888--4547950	6	10.2	6	78	13	65	23	12	14	49	1.78
4547891--4547950	13	4.8	13	83	4	79	25	13	15	46	1.81
4552326--4554314	54	36.7	54	85	4	2095	32	18	24	23	1.97
4554104--4554391	107	2.7	107	75	11	266	30	16	24	28	1.97
4554545--4554583	3	13.7	3	89	10	64	33	0	0	66	0.92
4555695--4555732	19	2.0	19	100	0	76	31	15	42	10	1.81
4558744--4558889	70	2.0	71	94	3	258	30	27	13	28	1.94
4562834--4562886	26	2.0	26	92	0	88	39	16	13	30	1.87
4565355--4565422	24	3.0	21	77	14	55	29	7	11	51	1.65
4568878--4568917	18	2.2	18	86	0	53	27	15	10	47	1.77
4577352--4577389	13	2.9	13	96	0	67	50	0	26	23	1.50
4584177--4584273	24	4.0	24	73	5	88	45	15	14	24	1.84
4584165--4584273	48	2.3	48	80	0	128	47	14	13	23	1.80
4593912--4593950	20	1.9	21	89	5	62	30	23	20	25	1.98
4597272--4597309	2	19.5	2	94	5	69	50	0	0	50	1.00
4598843--4599014	47	3.7	46	77	4	157	35	13	8	42	1.75
4601162--4601195	18	1.9	17	94	5	59	70	2	8	17	1.25
4601362--4601404	17	2.5	17	85	14	61	55	0	4	39	1.20
4601990--4602349	43	8.4	43	78	10	285	25	18	8	48	1.75
4601990--4602365	85	4.4	85	77	9	329	25	18	7	48	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4602031--4602368	128	2.6	127	81	8	366	26	19	6	47	1.74
4610504--4610546	22	2.0	22	95	0	77	37	27	16	18	1.92
4611829--4611917	3	30.3	3	75	6	76	30	0	6	62	1.20
4619812--4619928	49	2.3	49	85	5	146	25	16	10	47	1.78
4619812--4619946	49	2.7	49	81	4	137	27	16	9	46	1.78
4620527--4620565	20	1.9	21	84	5	53	48	17	7	25	1.74
4630716--4630754	18	2.2	17	90	4	60	30	2	2	64	1.21
4630823--4630853	10	2.9	11	90	9	55	32	9	0	58	1.31
4639004--4639077	28	2.7	26	78	16	69	24	13	16	45	1.83
4639627--4639697	23	3.1	23	75	2	72	35	26	19	18	1.95
4648212--4648432	54	4.1	53	77	10	189	33	9	17	38	1.83
4648701--4648831	59	2.2	59	82	2	147	25	24	19	30	1.98
4648837--4648923	37	2.3	36	86	5	111	29	20	13	35	1.92
4648949--4649062	59	1.9	59	85	3	158	24	26	18	30	1.98
4648626--4649179	249	2.2	249	88	3	797	28	21	16	32	1.95
4649087--4649258	39	4.4	39	86	1	254	31	17	18	31	1.94
4649087--4649258	79	2.2	78	91	1	272	31	17	18	31	1.94
4650052--4650089	20	1.9	20	88	0	58	21	13	34	31	1.91
4658574--4658730	65	2.5	63	83	4	192	28	15	24	31	1.95
4658741--4658778	20	1.9	20	94	0	67	18	15	34	31	1.92
4659027--4659107	39	2.1	39	86	2	110	34	14	17	33	1.90
4660817--4660875	29	2.0	30	80	9	68	16	15	10	57	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4661905--4661934	15	2.0	15	100	0	60	40	26	6	26	1.81
4663823--4664100	139	2.0	139	88	1	414	34	19	19	26	1.96
4667358--4667579	110	2.0	110	88	3	331	36	11	19	32	1.87
4667358--4667550	55	3.5	55	94	0	332	37	10	18	33	1.85
4667654--4668389	81	9.1	81	87	0	1006	36	11	20	31	1.88
4668541--4668575	2	17.5	2	100	0	70	51	0	0	48	1.00
4672504--4672658	55	2.8	55	84	4	199	38	10	17	33	1.85
4672757--4673548	81	9.8	81	86	1	964	37	9	20	31	1.86
4675376--4675447	22	3.5	22	69	30	77	31	20	20	26	1.98
4675368--4675446	39	2.0	39	97	0	149	30	17	24	27	1.97
4675391--4675454	17	3.5	17	67	32	51	32	15	23	28	1.95
4685963--4686018	24	2.3	24	78	6	69	46	16	17	19	1.84
4686724--4687438	365	2.0	361	96	3	1328	27	16	18	38	1.92
4688532--4688657	29	4.3	29	87	3	164	45	25	9	19	1.81
4688531--4688657	57	2.2	59	85	2	177	45	25	9	19	1.80
4690650--4690719	24	2.9	24	71	0	68	52	14	11	21	1.72
4690686--4690760	24	3.1	24	77	7	73	46	17	17	18	1.84
4690650--4690743	48	2.0	48	86	0	134	48	14	13	22	1.79
4692917--4693043	29	4.4	29	79	3	121	50	19	7	22	1.72
4694352--4694388	18	2.1	18	94	0	65	21	13	32	32	1.92
4695571--4695620	2	25.0	2	100	0	100	50	0	0	50	1.00
4701506--4701558	27	2.0	27	84	0	70	33	47	1	16	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4701513--4701552	21	1.9	21	89	0	62	35	47	0	17	1.48
4704469--4704521	21	2.6	21	79	8	65	26	13	26	33	1.93
4712275--4712357	4	20.0	4	73	7	67	65	0	4	30	1.14
4712275--4712359	17	5.1	17	71	13	68	64	0	4	30	1.14
4713040--4713064	2	12.5	2	100	0	50	52	0	0	48	1.00
4715472--4715537	31	2.2	31	88	2	98	24	24	12	39	1.89
4717084--4717152	31	2.2	31	89	0	102	30	23	8	37	1.85
4717828--4717867	10	4.0	10	86	0	53	27	32	0	40	1.57
4717909--4717942	9	3.9	9	84	7	52	35	0	2	61	1.11
4717908--4717947	17	2.4	17	95	4	73	35	0	5	60	1.19
4720208--4720292	35	2.5	33	76	14	82	27	7	10	55	1.60
4724504--4724536	3	11.0	3	100	0	66	66	0	0	33	0.92
4735186--4735223	10	3.7	10	86	6	58	21	23	28	26	1.99
4735186--4735228	21	2.0	21	100	0	86	18	27	30	23	1.98
4735945--4736001	30	1.9	30	85	0	78	8	29	22	38	1.85
4740891--4740918	12	2.3	12	100	0	56	17	17	17	46	1.85
4746574--4746615	20	2.1	20	100	0	84	40	30	0	28	1.57
4752347--4752394	2	24.0	2	100	0	96	50	0	0	50	1.00
4761635--4761729	21	4.5	21	94	0	163	20	21	35	23	1.96
4761736--4761830	21	4.6	21	92	1	120	30	16	26	26	1.97
4763565--4763633	33	2.1	33	97	0	129	28	14	13	43	1.83
4765144--4765186	23	1.9	22	85	4	59	23	18	9	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4766588--4766741	77	2.0	77	92	0	254	31	12	12	42	1.81
4782985--4783047	32	2.0	32	90	3	101	30	25	11	33	1.90
4784382--4784488	21	5.2	21	76	6	69	29	14	18	37	1.90
4784431--4784491	21	3.0	21	90	2	70	29	14	19	36	1.92
4784441--4784491	21	2.4	21	100	0	102	29	11	21	37	1.89
4788776--4788832	20	2.8	20	94	0	105	29	19	29	21	1.97
4789940--4790051	51	2.2	51	85	0	143	34	22	11	31	1.90
4790962--4790999	20	1.9	20	88	0	58	31	26	18	23	1.97
4791889--4791924	10	3.8	9	89	10	54	44	0	2	52	1.15
4792911--4793477	291	1.9	291	98	1	1093	23	9	29	37	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21