genome.fa.s8209.2.7.7.80.10.50.1000.19.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  19  of  30  ( 3569 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)
4429687--4429884	45	4.4	45	87	2	254	38	16	10	34	1.83
4429687--4429884	90	2.2	90	85	1	281	38	16	10	34	1.83
4432048--4432099	2	26.0	2	100	0	104	50	0	0	50	1.00
4433823--4433856	18	1.9	18	88	5	52	29	17	29	23	1.97
4436441--4436491	24	2.1	24	100	0	102	37	23	11	27	1.90
4438454--4438536	29	2.8	29	92	1	139	43	9	14	32	1.78
4441672--4441701	15	2.0	15	93	0	51	20	0	23	56	1.42
4442989--4443071	29	2.8	29	88	1	130	42	10	14	32	1.80
4445515--4445549	17	2.1	16	89	5	52	57	0	0	42	0.99
4463449--4463523	36	2.1	36	100	0	150	49	13	8	29	1.70
4467170--4467229	26	2.3	26	91	0	102	38	15	11	35	1.83
4468523--4468684	65	2.5	65	86	6	213	29	24	18	27	1.98
4469697--4469752	2	29.0	2	86	13	82	50	0	1	48	1.11
4470179--4471057	84	10.5	84	86	1	1062	24	18	23	34	1.96
4474564--4474601	20	1.9	20	88	0	58	10	26	36	26	1.89
4474584--4474645	21	2.9	21	85	4	70	16	25	35	22	1.94
4481788--4482051	95	2.7	94	82	4	305	34	16	15	34	1.90
4484925--4484950	13	2.0	13	100	0	52	84	0	7	7	0.77
4486033--4486095	2	32.0	2	84	15	87	50	0	3	46	1.17
4486863--4486893	12	2.6	12	100	0	62	9	22	48	19	1.78
4486891--4486989	2	53.0	2	68	13	59	49	0	0	50	1.00
4486898--4486976	41	1.9	41	89	5	124	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4495943--4496010	27	2.6	27	95	4	122	32	11	14	41	1.82
4499721--4499773	27	2.0	27	96	0	97	26	13	16	43	1.85
4524033--4524094	24	2.6	24	84	0	88	16	11	19	53	1.72
4524326--4524415	33	2.7	33	96	0	162	28	27	20	23	1.99
4525642--4525698	16	3.6	16	87	0	87	7	12	21	59	1.56
4525763--4525794	16	2.0	16	100	0	64	6	12	25	56	1.59
4528196--4528253	20	2.6	22	84	10	66	27	20	18	32	1.97
4531562--4531817	129	2.0	126	93	6	444	28	21	7	42	1.80
4532220--4532277	20	2.7	20	86	10	71	25	20	20	32	1.97
4532279--4532435	78	2.0	78	100	0	314	29	24	14	32	1.94
4535160--4535336	94	1.9	94	98	0	345	36	20	1	41	1.62
4535155--4535307	50	3.2	50	64	20	135	35	19	1	43	1.59
4536420--4536560	64	2.2	63	81	7	160	26	22	18	31	1.97
4540379--4540416	20	1.9	20	100	0	76	23	18	21	36	1.95
4540428--4540564	64	2.2	63	82	6	161	27	24	16	31	1.96
4544366--4544403	20	1.9	20	100	0	76	23	23	21	31	1.98
4544411--4544551	64	2.2	63	80	12	155	27	22	16	33	1.95
4548407--4548434	2	14.0	2	100	0	56	50	0	0	50	1.00
4550341--4551165	210	3.9	210	85	2	1013	27	21	15	35	1.94
4552117--4552215	21	4.8	20	75	6	81	37	23	18	21	1.94
4552182--4552375	20	9.6	20	81	5	221	35	25	19	19	1.95
4552182--4552375	60	3.2	60	83	0	253	35	25	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4552758--4552828	33	2.2	33	92	0	115	11	22	18	47	1.80
4552908--4553017	21	5.8	20	74	17	108	45	18	24	11	1.83
4552901--4553017	41	3.1	38	81	14	145	46	17	25	11	1.81
4552968--4553024	14	3.7	14	75	20	60	43	22	24	8	1.81
4552960--4553040	33	2.5	33	95	0	144	46	22	22	8	1.78
4553036--4553149	19	6.1	19	78	13	103	11	24	18	45	1.82
4553085--4553149	21	3.1	21	82	4	96	10	26	15	47	1.78
4554852--4555134	93	3.1	93	98	0	550	22	12	19	45	1.83
4555182--4555310	19	7.3	19	75	17	125	45	28	17	8	1.77
4555218--4555310	33	2.8	32	91	4	150	46	27	18	7	1.76
4555182--4555310	52	2.5	52	74	14	140	45	28	17	8	1.77
4555306--4555478	19	9.6	19	78	12	168	10	19	23	46	1.81
4555328--4555384	14	3.7	14	77	20	60	10	21	22	45	1.82
4555306--4555478	33	4.8	38	82	5	168	10	19	23	46	1.81
4557403--4557438	14	2.6	14	95	0	63	33	0	22	44	1.53
4557545--4557642	19	5.4	19	84	13	143	47	17	20	14	1.82
4557545--4557661	53	2.2	53	95	1	209	46	17	22	13	1.83
4557651--4557853	19	11.7	19	74	20	203	14	21	18	45	1.85
4557657--4557875	33	6.5	33	74	12	201	14	21	18	46	1.83
4557651--4557825	52	3.3	52	97	0	323	14	22	17	45	1.84
4559547--4559776	20	11.5	20	85	1	237	19	18	24	36	1.94
4559763--4559845	21	4.0	21	75	6	78	25	15	24	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4559743--4559841	42	2.4	43	77	11	100	21	17	23	38	1.93
4567484--4567540	20	2.8	20	91	0	87	42	17	15	24	1.88
4567534--4567581	21	2.3	21	89	3	71	39	27	14	18	1.90
4567514--4567702	20	9.4	20	71	10	100	34	22	12	29	1.91
4567430--4567589	20	8.0	20	73	10	82	39	23	14	23	1.91
4567613--4567703	40	2.3	40	80	5	121	35	21	10	31	1.89
4567859--4567897	16	2.5	15	84	8	51	28	5	0	66	1.12
4571414--4571513	21	4.8	21	74	12	89	23	20	34	23	1.97
4571394--4571514	42	2.9	41	81	4	143	23	18	34	23	1.96
4571806--4571927	63	1.9	63	83	6	158	31	31	13	23	1.93
4573610--4573681	20	3.7	20	98	1	137	50	22	18	9	1.76
4573685--4573746	20	3.0	20	90	7	88	12	19	19	48	1.81
4574248--4574308	19	3.2	20	90	2	72	39	18	21	21	1.93
4574264--4574308	19	2.4	19	100	0	90	35	20	22	22	1.96
4574322--4574411	20	4.4	20	76	5	83	23	18	20	37	1.94
4574696--4574725	2	15.0	2	100	0	60	50	0	50	0	1.00
4576445--4576491	22	2.1	22	100	0	94	40	12	19	27	1.88
4579312--4579434	31	3.9	32	76	7	117	31	18	18	30	1.95
4581956--4581981	13	2.0	13	100	0	52	38	15	23	23	1.92
4584492--4584654	61	2.7	61	84	2	213	39	1	23	34	1.65
4585106--4585191	38	2.2	38	79	18	90	48	4	6	39	1.51
4586022--4586090	21	3.2	21	71	10	59	47	1	0	50	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4586111--4586165	27	2.0	28	85	3	76	47	1	0	50	1.11
4586158--4586217	27	2.2	27	85	11	79	53	3	1	41	1.27
4586530--4586562	14	2.4	14	85	14	50	48	9	3	39	1.50
4591206--4592015	210	3.9	210	86	3	1051	34	14	22	29	1.94
4591227--4592050	418	2.0	416	85	2	1136	34	14	22	28	1.94
4600211--4600264	2	28.0	2	77	7	58	48	1	0	50	1.11
4604087--4604118	12	2.8	12	95	4	57	15	0	0	84	0.63
4605059--4605126	31	2.2	31	89	5	102	51	8	7	32	1.61
4612830--4612933	47	2.2	47	92	0	172	28	25	25	21	1.99
4613548--4613850	76	3.9	76	81	10	321	38	8	14	38	1.77
4613548--4613847	78	3.9	75	83	8	320	39	9	14	38	1.77
4613694--4613808	40	3.0	38	68	14	108	42	11	14	31	1.81
4613704--4613825	37	3.2	37	71	12	111	42	8	16	32	1.78
4613793--4613910	58	2.0	59	90	1	184	37	4	18	39	1.70
4613715--4613985	134	2.0	134	85	5	359	39	7	16	37	1.76
4613851--4613998	76	1.9	76	86	2	208	37	8	17	35	1.81
4614137--4614283	79	1.9	77	84	8	201	36	10	8	44	1.68
4622888--4623178	77	3.8	77	82	3	318	35	15	10	39	1.81
4623121--4623572	186	2.4	185	82	4	554	32	15	10	40	1.82
4623754--4623986	76	3.1	76	81	5	258	36	15	9	37	1.81
4630718--4630768	2	25.5	2	95	0	93	49	0	0	50	1.00
4631013--4631319	36	8.7	35	75	16	215	46	2	7	43	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4631032--4631088	29	1.9	30	92	7	98	38	0	12	49	1.41
4631038--4631091	12	4.1	12	74	21	54	38	0	11	50	1.38
4631031--4631094	29	2.2	30	86	8	96	40	0	10	48	1.38
4631062--4631348	35	7.8	37	77	11	254	47	2	6	43	1.43
4636973--4637634	106	6.5	105	81	8	731	34	24	17	23	1.96
4636989--4637591	200	3.0	200	84	8	782	35	24	17	22	1.95
4636973--4637634	306	2.2	306	86	1	934	34	24	17	23	1.96
4637835--4638745	165	5.5	165	89	1	1333	29	25	20	24	1.99
4639385--4639441	29	1.9	30	92	7	98	38	0	12	49	1.41
4639391--4639444	12	4.1	12	74	21	54	38	0	11	50	1.38

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