genome.fa.s8364.2.7.7.80.10.50.1000.20.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  20  of  27  ( 3136 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)
4481571--4481632	31	2.2	28	81	16	74	17	24	29	29	1.97
4486019--4486100	20	3.9	20	84	13	103	24	35	29	10	1.90
4486037--4486100	30	2.1	30	94	5	112	25	35	29	9	1.87
4486087--4486119	14	2.4	14	94	0	57	24	39	30	6	1.79
4486044--4486100	10	5.7	10	88	12	82	26	35	28	10	1.89
4486102--4486153	23	2.3	23	89	0	77	25	26	38	9	1.86
4486109--4486165	23	2.5	24	88	8	91	28	24	36	10	1.88
4490220--4490278	10	5.7	10	74	7	55	69	5	3	22	1.23
4491463--4491487	10	2.5	10	100	0	50	20	8	8	64	1.46
4499277--4499325	24	2.0	24	100	0	98	36	22	0	40	1.54
4503515--4503558	16	2.6	17	75	7	54	43	0	0	56	0.99
4503569--4503599	16	1.9	16	93	0	53	58	0	0	41	0.98
4504887--4505008	42	2.9	42	79	10	133	26	3	18	52	1.60
4513545--4513625	27	3.0	27	74	7	83	60	1	11	27	1.38
4513896--4513990	2	50.0	2	81	10	101	54	1	1	43	1.14
4515230--4515599	106	3.7	94	80	16	422	22	17	25	34	1.95
4515285--4515604	106	3.0	106	93	0	534	22	17	25	34	1.96
4515822--4515847	1	26.0	1	100	0	52	0	0	0	100	0.00
4525876--4525919	20	2.2	20	88	8	63	72	2	6	18	1.17
4527248--4527344	40	2.4	40	81	11	101	62	1	5	30	1.23
4530833--4530871	19	2.0	20	90	5	62	43	0	0	56	0.99
4530829--4530871	20	2.2	20	87	8	61	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4533661--4533719	30	2.0	30	93	3	102	35	3	13	47	1.60
4533897--4533957	32	1.9	32	96	0	113	22	32	18	26	1.97
4535245--4535292	19	2.5	20	82	3	62	52	6	12	29	1.63
4536569--4536626	30	2.0	30	93	3	100	36	5	13	44	1.66
4536706--4536761	21	2.7	21	83	5	69	30	32	16	21	1.95
4536960--4536999	20	1.9	21	85	10	55	37	37	10	15	1.80
4540148--4540207	25	2.4	25	100	0	120	36	23	6	33	1.81
4540269--4540304	3	12.0	3	87	0	54	30	63	2	2	1.22
4540266--4540304	15	2.6	15	91	0	60	28	64	2	5	1.28
4540260--4540299	21	1.9	21	89	0	62	22	65	2	10	1.35
4551735--4551939	105	2.0	105	99	0	401	26	20	24	27	1.99
4558190--4558220	16	1.9	16	100	0	62	58	22	12	6	1.58
4558286--4558360	10	7.7	10	68	21	52	58	21	10	9	1.59
4558290--4558354	16	4.1	16	91	0	112	58	23	10	7	1.57
4558554--4558601	12	4.2	11	84	7	60	22	27	22	27	1.99
4558554--4558601	23	2.1	23	96	0	87	22	27	22	27	1.99
4558554--4558592	11	3.5	11	86	6	60	23	25	20	30	1.98
4559474--4559526	14	4.1	14	81	18	78	50	26	15	7	1.70
4559464--4559525	24	2.6	24	94	0	106	53	24	12	9	1.69
4572983--4573033	21	2.5	20	78	18	59	37	1	1	58	1.20
4573620--4573667	24	2.0	24	83	4	60	39	10	18	31	1.85
4577105--4577159	23	2.4	23	96	0	101	10	9	32	47	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4578368--4578423	28	2.0	28	100	0	112	25	25	17	32	1.97
4586454--4586480	13	2.1	13	100	0	54	44	0	7	48	1.31
4593195--4593563	20	18.5	20	85	4	458	34	26	18	20	1.96
4594246--4594292	24	2.0	24	87	8	69	25	14	21	38	1.92
4594467--4594491	12	2.1	12	100	0	50	72	0	28	0	0.86
4596775--4597100	19	18.4	19	81	15	414	46	18	20	14	1.83
4596775--4597100	33	9.2	34	82	13	321	46	18	20	14	1.83
4596806--4597138	161	2.1	156	92	4	551	46	17	21	15	1.84
4596803--4597122	52	6.0	52	92	4	541	46	17	21	14	1.83
4597129--4597230	19	5.6	19	85	12	151	14	23	17	44	1.86
4597337--4597373	14	2.6	14	91	0	65	45	21	0	32	1.52
4599333--4599389	14	3.7	14	77	20	60	45	22	21	10	1.82
4599314--4599406	33	2.8	33	95	0	168	47	21	20	10	1.80
4599277--4599411	19	7.6	19	76	16	128	45	23	19	11	1.82
4599407--4599535	19	7.3	19	75	17	125	8	17	28	45	1.77
4599407--4599498	33	2.8	33	93	3	150	7	18	28	45	1.76
4599579--4600236	93	7.1	93	98	0	1284	46	18	12	22	1.83
4599579--4600236	185	3.5	186	98	0	1284	46	18	12	22	1.83
4599579--4600236	278	2.4	278	99	0	1298	46	18	12	22	1.83
4601941--4602030	14	5.7	14	74	23	81	42	23	25	8	1.83
4601933--4602047	33	3.5	33	95	0	212	45	20	24	9	1.81
4601940--4602052	19	6.8	18	72	23	88	43	22	24	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4602064--4602118	14	3.6	14	73	21	56	9	25	23	41	1.83
4602048--4602118	33	2.2	33	94	0	124	8	22	25	43	1.81
4602059--4602140	33	2.5	33	89	2	119	9	25	21	42	1.84
4602071--4602159	20	4.8	20	72	19	75	12	24	19	43	1.85
4602239--4602309	33	2.2	33	92	0	115	47	18	22	11	1.80
4602491--4602545	22	2.5	22	81	0	74	20	16	40	23	1.91
4602691--4602883	20	9.6	20	82	5	219	19	19	25	35	1.95
4602691--4602883	60	3.2	60	83	0	251	19	19	25	35	1.95
4602939--4602990	20	2.6	20	96	0	95	21	13	26	38	1.90
4612122--4612261	20	7.0	20	73	9	97	36	21	15	26	1.93
4615484--4615519	18	2.0	18	94	0	63	55	22	2	19	1.56
4615850--4615887	20	1.9	20	100	0	76	44	26	18	10	1.82
4615896--4615942	20	2.3	20	92	0	76	21	19	19	40	1.92
4616008--4616057	25	2.0	25	96	0	91	26	8	22	44	1.80
4616445--4616481	18	2.1	18	89	0	56	32	5	10	51	1.60
4616437--4616489	24	2.2	24	82	0	61	35	3	15	45	1.64
4616794--4616880	39	2.2	39	95	0	156	45	20	16	17	1.85
4617099--4617139	20	2.0	20	90	0	64	43	21	17	17	1.87
4618693--4618744	20	2.5	21	84	6	70	19	25	36	19	1.95
4618693--4618759	21	3.2	21	75	12	66	16	22	38	22	1.92
4618713--4618810	21	4.7	21	75	12	69	24	18	32	24	1.97
4621234--4621281	22	2.2	22	96	0	87	20	12	43	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4621418--4621513	20	4.8	20	75	12	99	20	15	23	39	1.91
4627097--4627141	20	2.2	20	96	0	81	40	0	55	4	1.20
4628095--4628122	2	14.0	2	100	0	56	50	0	0	50	1.00
4631592--4631640	24	2.0	24	92	0	80	24	24	28	22	1.99
4633039--4633109	20	3.5	20	98	0	133	30	15	15	38	1.89
4634345--4634376	2	16.5	2	93	6	57	50	0	0	50	1.00
4638811--4639618	408	2.0	410	97	1	1512	30	14	19	35	1.92
4639609--4639666	21	2.9	20	80	16	59	24	6	8	60	1.51
4639629--4639670	19	2.1	21	91	8	70	21	2	11	64	1.38
4640191--4640998	408	2.0	410	97	1	1512	30	14	19	35	1.92
4640989--4641046	21	2.9	20	80	16	59	24	6	8	60	1.51
4641009--4641050	19	2.1	21	91	8	70	21	2	11	64	1.38
4641992--4642024	2	16.5	2	100	0	66	51	0	0	48	1.00
4645979--4646009	15	2.1	15	93	0	53	45	0	0	54	0.99
4649076--4649124	19	2.5	20	93	6	84	46	8	0	44	1.33
4649120--4649184	28	2.3	28	82	12	80	43	4	0	52	1.22
4649120--4649200	30	2.8	30	78	17	82	38	6	0	55	1.25
4649818--4649851	17	1.9	17	88	5	50	64	2	0	32	1.08
4652708--4652754	18	2.6	18	89	0	67	31	12	6	48	1.66
4667780--4667885	51	2.1	52	98	1	205	20	24	26	28	1.99
4670612--4671359	84	9.0	83	80	4	737	29	24	21	24	1.99
4670612--4671384	165	4.7	164	85	2	1062	29	24	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4670612--4671314	249	2.8	246	81	4	879	29	24	21	24	1.99
4670612--4671384	330	2.3	332	93	1	1284	29	24	21	24	1.99
4678788--4678828	20	2.0	21	86	9	59	48	12	0	39	1.41
4679008--4679042	13	2.7	13	86	0	52	45	20	2	31	1.65
4681994--4682023	15	2.0	15	100	0	60	33	20	13	33	1.91
4686551--4686618	17	3.8	17	71	17	57	47	25	2	25	1.66
4686558--4686658	40	2.6	37	89	7	157	51	25	1	20	1.58
4693714--4693775	25	2.5	25	100	0	124	53	0	3	43	1.17
4694765--4694797	2	16.5	2	100	0	66	48	0	0	51	1.00
4698131--4698189	31	2.0	29	83	12	75	50	0	1	47	1.11

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