genome.fa.s8087.2.7.7.80.10.50.1000.23.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  23  of  37  ( 4336 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)
5223398--5223442	19	2.4	19	100	0	90	15	20	17	46	1.84
5223519--5223573	14	3.6	14	73	21	56	45	20	23	10	1.82
5223501--5223592	33	2.8	33	98	1	175	44	18	23	13	1.85
5223533--5223649	52	2.2	52	95	0	207	44	17	21	16	1.87
5223656--5223755	19	5.5	19	84	12	147	15	23	17	45	1.85
5223639--5223755	53	2.2	53	95	1	209	14	24	17	43	1.86
5223862--5223898	14	2.6	14	91	0	65	45	21	0	32	1.52
5225881--5225937	14	3.7	14	77	20	60	45	22	21	10	1.82
5225862--5225954	33	2.8	33	95	0	168	47	21	20	10	1.80
5225825--5225959	19	7.6	19	76	16	128	45	23	19	11	1.82
5225955--5226083	19	7.3	19	75	17	125	8	17	28	45	1.77
5225955--5226046	33	2.8	33	93	3	150	7	18	28	45	1.76
5226127--5226599	93	5.1	93	98	0	912	45	18	12	22	1.83
5226127--5226599	185	2.5	186	98	0	912	45	18	12	22	1.83
5228305--5228394	14	5.7	14	73	23	72	40	24	25	10	1.86
5228297--5228411	33	3.5	33	93	0	194	43	21	24	10	1.84
5228319--5228386	19	3.8	19	75	18	83	41	23	25	10	1.86
5228428--5228484	14	3.7	14	75	20	60	8	24	22	43	1.81
5228412--5228492	33	2.5	33	93	0	135	8	22	23	45	1.79
5228469--5228544	21	3.7	21	85	3	109	11	25	18	44	1.83
5228468--5228545	41	1.9	41	94	0	138	12	25	17	43	1.85
5228624--5228694	33	2.2	33	89	0	106	47	16	23	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5228876--5228930	22	2.5	22	81	0	74	20	16	40	23	1.91
5229053--5229134	40	2.1	40	81	6	96	23	14	23	39	1.91
5229076--5229308	20	11.6	20	85	3	263	20	19	25	33	1.96
5229295--5229377	21	4.0	21	73	6	78	25	16	24	33	1.96
5229275--5229373	42	2.4	43	77	11	100	21	18	23	37	1.94
5231257--5231647	78	5.0	78	98	0	755	28	20	21	28	1.98
5232308--5232342	2	17.5	2	100	0	70	48	0	0	51	1.00
5253297--5253324	2	14.0	2	100	0	56	50	0	0	50	1.00
5257017--5257064	10	4.4	10	76	19	51	60	18	10	10	1.57
5257017--5257094	24	3.5	23	81	6	90	64	16	7	11	1.49
5257624--5257649	13	2.0	13	100	0	52	61	7	23	7	1.49
5260071--5260719	182	3.6	181	84	1	805	42	11	17	28	1.84
5262865--5262894	15	2.0	15	93	0	51	20	13	50	16	1.78
5263248--5263286	18	2.2	18	95	0	69	56	0	35	7	1.28
5263588--5263623	17	2.1	17	100	0	72	50	8	11	30	1.67
5265133--5265644	198	2.6	199	90	3	789	36	17	15	30	1.91
5266150--5266185	15	2.4	15	95	0	63	16	47	2	33	1.61
5269177--5269222	21	2.1	21	84	4	56	30	15	10	43	1.81
5268842--5269372	198	2.7	199	81	5	667	38	16	14	30	1.88
5272319--5272481	87	1.9	87	90	0	263	30	14	12	42	1.83
5272403--5272447	23	2.0	23	86	0	63	35	20	8	35	1.84
5273610--5273635	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5274688--5274730	2	21.5	2	100	0	86	51	0	0	48	1.00
5278377--5278405	15	1.9	15	100	0	58	41	0	10	48	1.37
5291055--5291168	60	1.9	60	81	5	140	37	7	12	42	1.72
5291709--5291748	20	2.0	20	85	0	53	45	0	2	52	1.14
5292530--5292600	35	2.0	35	94	0	124	52	14	9	23	1.71
5292596--5293034	218	2.0	219	96	1	819	30	9	14	45	1.76
5296447--5296497	26	2.0	26	88	0	75	39	1	0	58	1.09
5298439--5298486	18	2.7	18	86	0	69	22	37	16	22	1.94
5303964--5304010	21	2.2	21	84	0	67	21	25	17	36	1.94
5304006--5304178	20	8.6	20	92	1	150	30	22	20	26	1.98
5304006--5304178	40	4.3	40	88	1	222	30	22	20	26	1.98
5304025--5304178	60	2.6	60	88	0	227	29	23	20	25	1.99
5304354--5304396	22	2.0	22	85	0	59	25	37	16	20	1.93
5304773--5304840	20	3.5	20	85	2	93	11	14	23	50	1.76
5306557--5306606	18	2.8	18	100	0	100	32	20	6	42	1.76
5306754--5306800	20	2.3	20	96	0	85	40	27	17	14	1.89
5307377--5307482	42	2.5	41	77	7	106	20	34	18	25	1.96
5308867--5308928	14	4.3	14	79	6	70	37	0	16	46	1.47
5308869--5308923	29	1.9	29	85	3	76	34	0	18	47	1.49
5309027--5309080	20	2.7	20	94	0	90	42	22	22	12	1.87
5309123--5309273	20	7.8	20	82	8	170	26	19	21	32	1.97
5309119--5309273	40	4.0	40	82	9	196	25	20	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5309091--5309266	40	4.8	37	83	8	166	24	19	21	34	1.97
5312595--5312740	20	7.3	20	89	1	186	28	20	20	30	1.98
5312737--5312782	21	2.2	21	88	0	65	39	19	23	17	1.92
5319235--5319315	26	2.9	27	78	14	85	51	1	0	46	1.08
5319256--5319359	25	3.8	25	73	17	91	54	0	1	42	1.17
5319235--5319358	57	2.2	59	83	12	170	52	1	1	44	1.20
5320576--5320626	25	2.0	26	88	3	77	56	0	3	39	1.18
5322536--5322560	11	2.3	11	100	0	50	28	24	32	16	1.96
5323363--5323403	20	2.0	22	85	9	59	53	2	17	26	1.56
5323724--5323780	24	2.4	24	93	0	96	31	21	21	26	1.98
5331208--5331247	19	2.1	19	86	9	55	52	15	2	30	1.55
5338171--5338217	23	2.0	23	84	8	60	61	2	2	34	1.20
5338865--5339049	96	1.9	97	93	1	318	45	14	9	29	1.77
5345003--5345032	13	2.3	13	100	0	60	16	46	23	13	1.82
5347530--5347597	24	2.8	24	82	8	93	29	14	17	38	1.90
5347761--5347789	2	14.5	2	100	0	58	48	0	0	51	1.00
5352207--5352322	24	4.8	24	86	7	146	25	14	18	40	1.89
5354832--5354867	16	2.2	16	100	0	72	55	5	5	33	1.46
5355129--5355778	182	3.6	181	86	2	856	42	12	16	27	1.85
5357486--5357538	21	2.5	21	100	0	106	41	9	16	32	1.81
5358032--5358077	21	2.1	21	84	4	56	30	15	10	43	1.81
5357244--5358254	426	2.5	401	83	9	1179	38	15	14	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5358244--5358282	19	2.0	19	85	5	51	38	12	7	41	1.72
5361383--5361826	197	2.2	198	80	8	492	38	13	15	32	1.87
5361939--5361983	23	2.0	23	90	0	72	35	24	8	31	1.86
5362364--5362438	22	3.3	23	75	7	82	36	9	5	49	1.58
5372183--5372216	2	17.0	2	100	0	68	50	0	0	50	1.00
5375627--5375692	31	2.1	31	100	0	132	9	28	22	39	1.85
5391908--5391946	2	20.0	2	94	5	71	48	0	0	51	1.00
5394986--5395405	210	2.0	209	93	0	723	33	16	15	34	1.90
5402813--5402847	15	2.3	15	90	9	54	2	42	0	54	1.15
5405723--5405748	5	5.2	5	100	0	52	80	0	0	19	0.71
5408400--5408605	63	3.2	63	75	15	151	30	16	23	29	1.96
5415409--5415445	8	4.9	8	83	12	51	45	27	2	24	1.66
5415411--5415437	14	1.9	14	100	0	54	44	29	0	25	1.54
5420010--5420111	45	2.3	45	81	3	116	27	17	19	35	1.94
5421903--5422023	64	1.9	63	88	5	181	34	20	18	26	1.95
5428877--5428997	64	1.9	63	86	8	174	36	19	17	26	1.94
5429658--5429749	23	4.0	23	88	0	130	19	23	27	29	1.98
5433805--5433882	20	3.7	20	89	6	111	30	21	21	25	1.98
5437086--5437245	18	8.9	18	88	0	230	20	22	30	26	1.98
5439311--5439342	13	2.5	13	94	0	55	28	46	3	21	1.66
5449224--5449683	227	2.0	227	100	0	920	21	20	17	41	1.91
5450890--5450935	22	2.1	22	100	0	92	30	19	28	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5463409--5463445	19	1.9	19	94	0	65	29	5	2	62	1.31
5464185--5464214	3	9.7	3	92	7	51	0	36	0	63	0.95
5467406--5467448	20	2.1	21	91	4	70	34	0	4	60	1.17
5467440--5467475	18	1.9	19	88	5	56	41	2	0	55	1.14
5479494--5479520	3	9.0	3	100	0	54	33	0	0	66	0.92
5479676--5479720	18	2.7	16	77	12	54	37	0	0	62	0.96
5480098--5480131	8	4.1	8	92	3	50	50	0	2	47	1.16
5480515--5480571	29	1.9	30	85	7	80	43	3	5	47	1.43
5481308--5481347	20	2.0	20	90	0	62	30	15	15	40	1.87
5481466--5481504	17	2.3	17	100	0	78	41	7	28	23	1.82

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