genome.fa.s8027.2.7.7.80.10.50.1000.23.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  23  of  38  ( 4505 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)
4846584--4846889	41	7.4	41	81	8	155	32	18	18	30	1.95
4852213--4852272	3	20.0	3	89	6	95	65	1	0	33	1.03
4853298--4853379	42	2.0	42	85	0	110	30	10	13	45	1.78
4856872--4857264	185	2.1	185	89	3	605	42	3	8	45	1.51
4858380--4858416	18	2.1	18	100	0	74	37	21	21	18	1.94
4860920--4860968	3	16.3	3	86	0	71	26	0	6	67	1.14
4864619--4864665	20	2.4	19	82	10	67	53	10	17	19	1.72
4864407--4864879	181	2.6	182	90	0	714	42	13	16	26	1.86
4864800--4864846	20	2.4	19	82	10	67	53	10	17	19	1.72
4864811--4864851	20	2.2	19	83	12	50	51	14	17	17	1.77
4867039--4867103	21	3.1	21	93	0	103	41	10	30	16	1.83
4867137--4867202	33	2.0	33	90	0	105	28	0	48	22	1.51
4868921--4868969	19	2.6	19	96	0	89	32	2	10	55	1.45
4869203--4869966	200	3.8	200	94	0	1305	35	14	18	30	1.91
4870591--4870616	2	13.0	2	100	0	52	50	0	0	50	1.00
4871426--4871477	6	8.7	6	89	0	68	42	3	32	21	1.71
4871426--4871477	12	4.3	12	92	0	77	42	3	32	21	1.71
4872691--4873279	183	3.2	183	93	0	1000	35	14	16	33	1.89
4873153--4873399	120	2.1	120	93	0	422	31	14	16	37	1.88
4872972--4873560	303	1.9	303	96	0	1079	34	14	16	34	1.89
4876910--4877159	87	2.9	87	96	0	455	33	14	9	42	1.79
4876994--4877038	23	2.0	23	86	0	63	37	15	8	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4877486--4877548	32	2.0	31	84	3	81	20	31	26	20	1.98
4880706--4880749	18	2.4	18	80	0	52	13	40	0	45	1.44
4880678--4880767	36	2.4	38	75	5	94	15	40	3	41	1.64
4882573--4882645	19	3.6	19	75	16	51	54	4	1	39	1.28
4882778--4882848	19	3.6	20	76	14	67	69	2	0	28	1.03
4882788--4882848	8	7.9	8	73	12	56	70	3	0	26	1.02
4882780--4882830	11	4.5	11	79	16	50	72	1	0	25	0.95
4882778--4882827	16	2.9	17	82	8	57	72	2	0	26	0.96
4883938--4883993	2	27.5	2	96	3	103	50	1	0	48	1.11
4884326--4884375	20	2.2	24	86	13	72	48	0	0	52	1.00
4884663--4884719	30	1.9	30	85	7	80	28	3	5	63	1.33
4885335--4885387	25	2.2	23	86	6	70	62	1	1	33	1.17
4887888--4888080	5	38.6	5	100	0	386	79	0	0	20	0.73
4894596--4894954	194	1.8	195	89	0	558	42	13	12	31	1.81
4894923--4894996	20	3.7	20	94	0	121	45	21	10	21	1.82
4895653--4895724	19	3.7	19	67	10	56	48	2	13	34	1.57
4898672--4899048	200	1.9	200	82	4	483	40	13	14	31	1.85
4898877--4899225	177	2.0	178	85	6	485	39	14	13	32	1.85
4898677--4899390	378	1.9	378	83	2	932	39	13	14	32	1.85
4901392--4901556	36	4.6	36	90	3	262	18	18	18	44	1.87
4903969--4904042	36	2.1	36	97	0	139	24	29	22	22	1.99
4905955--4906012	29	2.0	29	96	0	107	18	27	13	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4912022--4912054	7	4.9	7	96	3	59	60	9	15	15	1.58
4915522--4915555	2	17.0	2	100	0	68	50	0	0	50	1.00
4917416--4917445	15	2.0	15	93	0	51	30	6	13	50	1.67
4917644--4917689	19	2.4	19	96	0	83	15	19	15	50	1.79
4917796--4917873	6	13.0	6	78	10	70	30	12	5	51	1.62
4919694--4919749	21	2.7	21	97	2	105	19	10	17	51	1.74
4919317--4920399	466	2.4	468	83	6	1362	42	15	13	29	1.85
4921903--4921953	12	4.3	12	76	18	54	31	0	1	66	1.03
4921936--4922013	26	3.0	27	82	12	94	44	0	1	53	1.08
4921907--4922071	64	2.6	64	91	4	266	41	0	1	56	1.10
4921966--4922050	38	2.2	38	85	12	111	44	0	1	54	1.07
4922594--4922653	31	1.9	31	89	0	93	41	10	8	40	1.69
4923307--4923662	108	3.2	107	67	14	279	32	14	14	38	1.87
4923065--4923768	226	3.1	226	88	1	966	32	14	14	38	1.87
4925114--4925152	20	2.0	20	94	0	69	33	7	7	51	1.59
4929346--4929408	11	5.8	11	71	14	51	60	3	1	34	1.22
4929376--4929414	21	1.9	20	84	5	51	61	0	0	38	0.96
4929822--4929855	17	2.0	17	100	0	68	11	41	11	35	1.78
4931013--4931092	29	2.8	29	96	0	142	37	17	15	30	1.90
4931557--4931595	2	19.5	2	100	0	78	48	0	0	51	1.00
4936421--4936460	21	2.0	21	85	14	57	42	5	22	30	1.75
4941015--4941114	30	3.4	28	76	10	92	41	13	8	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4942547--4942637	28	3.2	28	87	1	101	27	34	14	24	1.94
4942545--4942636	42	2.2	43	84	2	114	28	32	15	23	1.95
4942545--4942636	14	6.5	14	77	2	76	28	32	15	23	1.95
4945149--4945237	31	2.8	31	82	1	115	14	28	30	26	1.95
4945393--4945464	2	36.0	2	100	0	144	50	0	0	50	1.00
4947300--4947348	25	2.0	25	87	0	71	18	22	16	42	1.88
4949827--4949878	2	26.0	2	88	0	77	50	5	0	44	1.26
4951029--4951112	42	2.0	42	97	0	159	33	34	7	25	1.83
4952819--4953183	130	2.8	132	82	3	452	39	14	11	34	1.83
4955316--4955351	3	12.3	3	88	5	56	66	0	0	33	0.92
4956011--4956081	32	2.2	31	78	9	81	11	15	33	39	1.83
4956087--4956122	3	12.0	3	100	0	72	66	0	0	33	0.92
4954916--4956440	771	2.0	763	87	3	2172	26	15	23	34	1.95
4956367--4957647	232	5.5	233	84	4	1542	33	16	16	33	1.92
4956848--4956944	42	2.3	41	79	10	108	35	23	17	23	1.96
4959310--4959348	2	20.0	2	94	5	71	48	0	0	51	1.00
4965958--4966024	6	11.7	6	82	9	68	53	0	0	46	1.00
4965952--4966026	15	5.0	15	88	0	87	56	0	0	44	0.99
4965966--4966026	21	2.9	21	95	0	104	52	0	0	47	1.00
4965952--4966026	6	12.5	6	86	0	60	56	0	0	44	0.99
4965958--4966024	9	7.4	9	84	0	80	53	0	0	46	1.00
4968512--4968538	13	2.1	13	100	0	54	37	7	7	48	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4970823--4970890	28	2.4	27	76	7	73	38	35	0	26	1.57
4977231--4977269	14	2.7	14	84	4	51	20	28	2	48	1.62
4979548--4979590	20	2.2	19	88	12	61	25	2	2	69	1.12
4979546--4979602	20	3.4	16	76	19	53	26	3	1	68	1.15
4979541--4979601	19	3.4	19	70	19	58	24	4	1	68	1.18
4982679--4982758	32	2.6	31	76	9	83	36	28	21	13	1.92
4984556--4984627	28	2.5	28	95	2	126	15	12	4	68	1.36
4989462--4989533	3	24.0	3	84	5	92	40	0	0	59	0.97
4989967--4990009	20	2.2	20	83	8	52	53	37	9	0	1.33
4990980--4991024	22	2.0	22	86	8	63	42	0	0	57	0.98
4991074--4991136	26	2.5	26	85	7	78	44	1	0	53	1.10
5002163--5002239	8	9.0	8	75	23	68	83	2	14	0	0.76
5002168--5002233	18	3.8	18	88	7	84	83	3	13	0	0.76
5003608--5003843	114	2.1	114	89	1	366	35	13	20	29	1.92
5004532--5005068	113	4.8	112	87	4	668	38	14	17	29	1.89
5005013--5005173	36	4.6	36	96	2	292	48	11	21	19	1.79
5005076--5005138	20	3.3	20	69	22	64	50	7	23	17	1.72
5005541--5005600	3	20.0	3	88	6	86	38	0	0	61	0.96
5005557--5005608	27	1.9	27	84	0	68	48	0	0	51	1.00
5007126--5007170	22	2.0	22	86	8	63	42	0	0	57	0.98
5007220--5007282	26	2.5	26	85	7	78	44	1	0	53	1.10
5010492--5010524	17	2.0	17	94	5	59	9	12	18	60	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5010920--5011013	29	3.2	29	76	8	100	38	11	11	38	1.78
5011442--5011468	2	13.5	2	100	0	54	48	0	0	51	1.00
5012929--5012960	16	2.0	16	100	0	64	37	25	25	12	1.91
5018054--5018101	24	2.0	25	87	4	71	45	0	12	41	1.42
5019491--5019573	32	2.5	35	90	9	145	62	0	0	37	0.95
5019495--5019583	43	2.0	44	82	6	110	60	0	0	39	0.97
5019901--5019961	31	2.0	31	86	0	86	42	11	8	37	1.71
5027488--5027607	42	2.9	42	98	0	231	15	20	19	44	1.87
5027796--5027856	22	2.8	23	82	7	65	47	0	0	52	1.00
5027822--5027924	54	1.9	52	84	11	138	48	0	0	49	1.14

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