genome.fa.s8243.2.7.7.80.10.50.1000.26.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   38   39   40   41   42   43   44   45   46   47   48   
          49   

This is table  26  of  49  ( 5786 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)
5601722--5601766	21	2.1	21	91	0	72	51	20	15	13	1.76
5601777--5601861	43	2.0	43	88	4	127	32	15	18	32	1.92
5602149--5602184	15	2.3	16	90	9	65	44	5	0	50	1.25
5604871--5604913	14	3.1	14	86	6	52	53	2	2	41	1.26
5610994--5611020	14	1.9	14	100	0	54	37	29	14	18	1.91
5613010--5613055	17	2.5	17	89	10	65	32	10	2	54	1.47
5626480--5626542	24	2.9	21	88	9	83	20	36	25	17	1.94
5626502--5626562	24	2.8	21	82	12	61	22	37	24	14	1.92
5626524--5626563	21	2.0	21	85	5	55	27	37	25	10	1.88
5628025--5628088	29	2.2	29	94	0	110	29	17	9	43	1.80
5629835--5629875	21	1.9	22	90	5	66	26	19	17	36	1.94
5633039--5633075	6	6.2	6	93	0	56	35	16	43	5	1.71
5633709--5633754	24	1.9	23	83	16	58	47	2	0	50	1.13
5633765--5633825	29	2.1	29	84	6	79	47	1	0	50	1.10
5633739--5633802	23	2.6	24	79	18	62	50	1	0	48	1.10
5633998--5634042	23	2.0	23	86	0	63	53	2	2	42	1.25
5634953--5635051	47	2.1	47	94	0	171	31	16	8	44	1.76
5636594--5636650	23	2.4	23	80	16	55	49	1	1	47	1.22
5642254--5642293	18	2.3	18	86	4	55	22	22	15	40	1.91
5648710--5648840	65	2.0	65	92	0	217	38	12	18	31	1.87
5652557--5652620	33	2.0	32	93	3	110	67	6	10	15	1.40
5652557--5652625	30	2.2	32	87	12	99	66	5	10	17	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5662831--5662865	18	1.9	18	94	0	61	17	34	37	11	1.85
5668288--5668344	6	9.8	6	81	7	55	47	8	3	40	1.52
5668301--5668701	6	66.8	6	94	0	595	36	1	12	48	1.52
5679954--5680014	23	2.7	23	92	0	95	26	24	29	19	1.99
5680028--5680250	103	2.2	103	99	0	437	37	25	12	25	1.91
5680999--5681223	64	3.5	64	83	8	246	27	19	19	33	1.96
5682589--5682615	2	13.5	2	100	0	54	0	0	48	51	1.00
5683311--5683343	2	16.5	2	93	0	57	51	0	0	48	1.00
5686678--5686707	16	1.9	15	93	6	51	13	26	13	46	1.80
5689485--5689543	22	2.7	21	85	12	75	49	3	3	44	1.36
5692617--5692643	12	2.2	12	100	0	54	22	7	33	37	1.82
5694940--5695090	49	3.1	49	100	0	302	51	15	12	19	1.75
5702552--5702666	46	2.5	46	81	5	135	23	9	20	46	1.79
5702992--5703018	14	1.9	14	100	0	54	29	3	0	66	1.09
5704401--5704459	23	2.6	23	80	0	73	33	23	10	32	1.88
5705632--5705948	156	2.0	157	97	1	602	29	11	14	44	1.81
5706608--5706670	11	5.9	11	69	14	51	38	3	1	57	1.24
5706627--5706681	25	2.3	25	81	6	69	38	3	3	54	1.36
5706719--5706756	20	1.9	20	94	0	67	21	21	23	34	1.97
5707478--5707588	41	2.7	42	86	6	138	31	18	19	29	1.96
5707754--5707792	16	2.4	16	86	0	51	17	28	17	35	1.94
5707943--5708000	17	3.2	17	75	17	62	37	0	3	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5707941--5707998	20	3.0	20	78	14	68	37	0	3	58	1.15
5708645--5708702	23	2.5	23	88	0	98	39	17	10	32	1.83
5708799--5708852	20	2.7	20	85	5	65	61	11	12	14	1.58
5710682--5710739	6	9.5	6	86	1	80	1	3	44	50	1.29
5710672--5710739	18	3.7	18	84	2	82	4	4	42	48	1.43
5710786--5710875	45	2.0	45	100	0	180	17	4	33	44	1.69
5710972--5711181	111	1.9	114	81	7	259	35	7	27	30	1.83
5711425--5711532	33	3.4	32	65	22	84	34	12	7	46	1.69
5711457--5711537	20	4.0	20	65	30	55	33	13	6	46	1.68
5711424--5711560	61	2.2	61	93	0	238	34	10	7	47	1.66
5711626--5711732	33	3.3	33	97	1	198	44	5	6	42	1.53
5711716--5711748	9	3.7	9	84	15	50	39	0	6	54	1.25
5711626--5711800	33	5.3	31	83	11	124	42	5	6	45	1.53
5711682--5711808	35	3.8	34	74	17	90	40	5	6	48	1.52
5711676--5711856	18	10.8	17	73	19	66	41	5	6	45	1.53
5711920--5711954	15	2.4	15	95	4	63	48	0	5	45	1.26
5712024--5712139	7	18.0	6	76	13	65	46	3	6	43	1.45
5712024--5712139	2	54.0	2	70	19	65	46	3	6	43	1.45
5712003--5712093	25	3.6	24	73	14	67	45	3	7	43	1.49
5712065--5712125	27	2.3	27	88	2	88	49	3	6	40	1.45
5712151--5712198	24	2.0	24	88	8	71	43	10	6	39	1.64
5712169--5712262	33	2.8	33	100	0	188	40	6	8	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5712350--5712453	20	5.1	20	70	19	56	43	7	3	45	1.51
5712208--5712426	93	2.4	92	80	11	236	39	9	7	43	1.64
5712321--5712425	44	2.4	43	73	12	113	40	7	4	47	1.53
5712225--5712428	91	2.2	93	80	13	228	39	9	6	44	1.63
5712423--5712493	27	2.7	27	86	2	99	47	4	7	40	1.50
5712410--5712509	20	5.0	19	72	9	67	46	4	8	42	1.52
5712732--5712811	31	2.6	32	80	13	96	47	2	3	46	1.34
5713007--5713480	216	2.2	217	93	1	801	29	11	8	50	1.68
5714003--5714077	37	2.0	37	100	0	150	22	18	13	45	1.84
5714076--5714111	18	2.0	18	94	0	63	22	2	38	36	1.69
5714634--5714663	2	15.0	2	100	0	60	50	0	0	50	1.00
5716532--5716580	22	2.3	20	77	16	62	46	2	0	51	1.12
5717175--5717315	63	2.3	63	82	3	160	21	14	31	32	1.93
5717176--5717312	31	4.4	31	72	8	98	21	14	31	32	1.93
5717740--5717796	2	29.0	2	96	3	107	49	0	0	50	1.00
5717810--5718052	39	6.5	37	80	12	230	42	5	7	44	1.56
5718037--5718111	32	2.3	32	90	0	114	45	2	8	44	1.47
5718186--5718245	10	5.9	10	77	15	61	26	5	0	68	1.10
5718190--5718230	13	3.2	13	92	0	73	29	2	0	68	1.03
5719630--5719697	21	3.2	21	81	6	66	20	5	0	73	1.04
5720194--5720218	2	12.5	2	100	0	50	52	0	0	48	1.00
5723923--5723948	6	4.3	6	100	0	52	53	0	46	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5724804--5724833	15	2.0	15	100	0	60	46	13	20	20	1.83
5726914--5727437	263	2.0	258	81	9	618	30	11	17	40	1.84
5727285--5727743	227	2.0	231	97	2	881	25	12	19	41	1.87
5730698--5730736	17	2.2	19	86	9	55	33	15	5	46	1.68
5734334--5734732	162	2.5	161	87	2	566	33	14	13	38	1.85
5736744--5736803	27	2.2	27	79	5	68	35	11	6	46	1.67
5737824--5737879	21	2.7	21	81	8	53	41	21	30	7	1.80
5738123--5738180	24	2.4	24	97	0	107	39	17	17	25	1.91
5739779--5740003	112	2.0	112	100	0	450	29	26	20	24	1.99
5742397--5742471	22	3.4	22	92	0	123	37	21	8	33	1.83
5748266--5748317	22	2.4	22	90	0	86	40	19	5	34	1.75
5752833--5753053	114	2.0	112	92	4	374	45	10	22	21	1.83
5756669--5756750	21	3.7	22	78	13	71	21	23	31	23	1.98
5756686--5756750	23	2.8	23	88	4	87	24	23	30	21	1.99
5758194--5758229	18	2.0	18	94	0	63	16	50	19	13	1.79
5760768--5760874	24	4.5	24	74	0	97	23	11	16	48	1.78
5763003--5763055	13	3.8	13	77	18	61	16	49	20	13	1.79
5763003--5763068	30	2.2	31	91	2	107	16	46	21	15	1.83
5763003--5763068	18	4.0	18	72	22	72	16	46	21	15	1.83
5765603--5765711	24	4.5	24	77	4	103	21	13	16	48	1.80
5769714--5769935	117	1.9	117	83	5	288	27	15	8	48	1.74
5775464--5775488	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5775693--5775787	18	5.3	18	75	15	90	61	4	14	20	1.50
5775839--5775886	21	2.3	22	78	10	55	60	4	2	33	1.27
5781425--5781465	8	5.2	8	82	11	50	36	0	26	36	1.57
5781546--5782276	128	5.7	128	96	0	1345	20	24	21	32	1.97
5801806--5801861	22	2.5	22	97	2	103	39	14	23	23	1.91
5802352--5802407	29	1.9	29	96	0	103	51	8	21	17	1.72
5804125--5804151	13	2.1	13	100	0	54	14	37	25	22	1.93
5806898--5806942	21	2.1	21	87	0	63	55	0	0	44	0.99
5808404--5808457	22	2.5	22	78	0	63	38	22	9	29	1.85
5812850--5813218	184	2.0	183	99	0	729	19	24	23	32	1.98

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   38   39   40   41   42   43   44   45   46   47   48   
          49