genome.fa.s8716.2.7.7.80.10.50.1000.19.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

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   

This is table  19  of  24  ( 2813 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)
4567709--4567743	17	2.1	17	88	0	52	34	0	2	62	1.10
4568959--4569023	19	3.4	18	80	15	69	35	0	4	60	1.18
4573100--4573132	13	2.4	14	95	5	59	30	12	9	48	1.71
4573225--4573262	3	12.7	3	100	0	76	31	0	0	68	0.90
4573346--4573395	23	2.2	23	85	7	66	34	2	2	62	1.18
4573491--4573543	18	3.1	17	77	17	56	35	0	16	47	1.48
4576568--4576960	193	2.1	190	83	4	495	37	11	11	38	1.79
4576620--4577042	193	2.2	192	80	4	465	37	12	11	38	1.80
4584135--4584186	3	17.7	3	78	11	54	59	1	0	38	1.08
4584499--4584938	124	3.5	124	84	6	493	27	18	25	28	1.98
4584634--4584938	124	2.5	124	92	1	513	27	19	25	27	1.99
4585066--4585137	37	1.9	37	83	5	92	38	12	18	30	1.87
4585218--4585304	32	2.7	32	89	0	129	32	19	17	31	1.95
4586341--4586415	23	3.0	24	76	13	71	4	18	6	70	1.25
4591475--4591510	3	11.7	3	94	5	63	63	0	0	36	0.94
4592613--4592666	22	2.5	22	81	3	65	25	11	24	38	1.88
4595504--4595568	18	3.6	18	93	0	103	35	26	21	16	1.95
4597485--4597520	19	1.9	18	94	5	63	50	0	16	33	1.46
4603407--4603433	8	3.4	8	100	0	54	85	0	0	14	0.61
4603658--4603698	19	2.2	19	86	8	57	75	2	4	17	1.08
4604393--4604517	59	2.1	60	86	1	171	42	23	14	20	1.88
4605191--4605238	7	7.0	7	92	4	80	16	0	41	41	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4605403--4605465	11	5.9	11	69	14	51	38	1	3	57	1.24
4606464--4606505	14	2.8	14	86	13	57	33	2	0	64	1.07
4606923--4606972	23	2.3	21	82	6	55	64	2	2	32	1.16
4607254--4607288	3	12.0	3	93	6	63	34	0	0	65	0.93
4607263--4607314	9	5.9	9	84	4	61	44	0	0	55	0.99
4608059--4608117	26	2.3	26	96	0	109	25	20	22	32	1.98
4608592--4608658	34	1.9	36	87	6	102	41	1	5	50	1.36
4619356--4619397	13	3.3	13	87	12	61	78	0	14	7	0.95
4620453--4620513	26	2.3	26	91	0	104	45	6	24	22	1.76
4620350--4620636	149	1.9	149	90	1	459	39	14	20	26	1.90
4620483--4620774	123	2.4	125	84	5	362	41	15	19	24	1.89
4620701--4621050	137	2.6	139	83	4	435	40	15	18	25	1.90
4621252--4621290	8	4.9	8	90	9	62	33	0	2	64	1.08
4621257--4621289	17	1.9	17	100	0	66	36	0	3	60	1.12
4621256--4621292	3	13.0	3	83	11	51	35	0	2	62	1.10
4623921--4623955	2	18.5	2	88	11	56	54	0	0	45	0.99
4625969--4626055	7	11.7	7	68	20	52	77	1	3	18	0.98
4625969--4626054	15	5.8	14	74	14	66	76	1	3	18	0.99
4627334--4627425	7	13.3	7	80	11	84	68	0	1	30	0.97
4627322--4627403	26	3.2	25	77	6	78	73	0	1	25	0.91
4627344--4627405	18	3.4	19	77	6	74	72	0	0	27	0.85
4627321--4627429	36	3.2	33	78	17	98	70	0	1	27	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4627389--4627437	24	2.1	23	81	11	55	63	2	2	32	1.17
4627502--4627567	34	1.9	34	87	6	98	46	13	1	37	1.53
4627486--4627858	38	9.7	37	71	18	167	44	8	2	45	1.45
4627595--4627623	2	15.0	2	92	7	51	48	0	0	51	1.00
4627557--4627700	43	3.1	48	80	17	146	43	5	2	49	1.37
4627557--4627700	49	3.1	47	80	15	160	43	5	2	49	1.37
4627605--4627870	38	7.0	38	85	7	294	43	6	3	45	1.47
4627432--4627813	204	1.9	202	83	9	508	44	7	2	45	1.44
4628406--4628906	260	1.9	260	82	3	632	27	19	19	33	1.96
4628753--4628981	85	2.7	85	80	6	248	28	16	19	34	1.94
4631388--4631879	251	2.0	251	90	0	770	23	16	22	38	1.93
4634867--4634897	7	4.3	7	92	8	53	83	0	3	12	0.75
4634855--4634897	15	3.1	15	84	15	58	83	0	4	11	0.78
4636156--4636247	40	2.3	39	83	12	107	72	1	2	23	1.02
4636254--4636660	38	10.7	38	78	12	322	42	7	3	46	1.49
4637608--4637638	10	3.1	10	95	0	53	25	0	0	74	0.82
4642898--4643069	46	3.7	46	95	0	290	34	15	16	33	1.90
4646461--4646500	3	13.3	3	94	0	71	35	0	2	62	1.09
4652994--4653027	12	2.8	12	81	0	50	41	0	0	58	0.98
4653275--4653329	15	3.5	15	79	13	56	18	3	40	38	1.68
4653284--4653341	15	3.7	15	84	13	80	17	5	39	37	1.72
4653273--4653338	18	3.8	18	88	9	102	18	4	40	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4654006--4654050	20	2.3	20	80	3	56	46	4	2	46	1.35
4654051--4654088	14	2.8	13	84	7	58	52	0	5	42	1.24
4654216--4654250	18	1.9	18	100	0	70	45	37	11	5	1.64
4657940--4657995	3	19.3	3	78	14	64	41	0	0	58	0.98
4659314--4659387	28	2.6	27	78	17	71	31	6	2	59	1.37
4659485--4659737	118	2.1	118	82	7	291	38	7	6	47	1.59
4659707--4659765	31	1.9	31	86	6	84	47	0	1	50	1.11
4665589--4665665	4	21.8	4	80	19	84	83	0	16	0	0.66
4665593--4665680	25	3.6	24	85	14	110	84	0	14	1	0.69
4665600--4665672	1	73.0	1	72	0	56	86	0	13	0	0.58
4670368--4670443	22	3.5	22	94	0	134	35	11	13	39	1.81
4671121--4671927	76	10.6	76	94	0	1382	24	18	21	35	1.96
4671860--4671959	46	2.2	46	92	1	166	22	20	21	37	1.95
4672111--4672172	3	21.3	3	80	12	76	40	0	0	59	0.97
4673599--4673640	12	3.6	12	80	6	59	28	2	2	66	1.16
4673587--4673642	11	5.2	11	76	16	55	26	1	1	69	1.08
4674909--4675308	108	3.6	109	70	8	315	39	14	14	31	1.86
4674823--4675426	226	2.7	224	88	2	892	39	13	15	32	1.86
4675600--4676324	198	3.7	198	82	5	869	35	15	13	36	1.86
4675600--4677205	199	8.3	198	70	14	919	34	14	13	37	1.85
4676133--4676877	178	4.1	178	74	12	675	33	14	14	37	1.86
4675655--4677076	378	3.7	374	84	5	1652	33	14	14	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4676311--4676707	200	2.0	200	86	3	550	34	14	14	37	1.86
4676511--4676877	177	2.1	178	88	4	546	33	14	14	37	1.87
4677059--4677100	21	2.0	22	90	9	70	42	9	11	35	1.74
4676689--4677175	195	2.5	190	80	8	505	33	13	13	40	1.83
4681714--4682956	200	6.2	200	80	6	1231	34	13	13	38	1.83
4681714--4682960	199	6.2	200	80	6	1230	34	12	13	38	1.83
4693708--4693758	24	2.2	24	86	10	70	68	3	11	15	1.34
4701208--4701731	200	2.7	194	80	5	554	30	17	11	39	1.86
4724138--4724320	39	4.7	39	85	0	249	36	21	25	16	1.94
4725649--4725705	29	1.9	30	82	3	71	40	19	7	33	1.78
4730481--4730676	39	5.0	39	80	3	225	35	24	23	16	1.95
4730481--4730676	78	2.5	78	85	4	261	35	24	23	16	1.95
4742073--4742135	3	21.0	3	100	0	126	33	0	0	66	0.92
4759971--4760000	15	2.1	14	93	6	51	80	0	0	20	0.72
4759943--4760002	27	2.2	28	85	8	79	75	0	3	21	0.95
4760075--4760105	15	2.1	15	93	0	53	61	0	9	29	1.28
4761246--4761324	7	10.3	7	78	16	50	73	2	6	17	1.16
4761272--4761304	14	2.4	14	100	0	66	72	0	12	15	1.12
4761396--4761714	38	8.4	39	76	16	146	43	8	3	44	1.51
4761399--4761897	39	13.3	35	76	14	353	43	7	3	45	1.49
4761662--4761721	12	4.9	12	70	11	50	46	8	0	45	1.33
4761604--4761844	37	6.7	33	76	17	112	43	8	2	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4762374--4762427	21	2.6	21	100	0	108	24	16	29	29	1.97
4762419--4762571	41	3.7	41	87	6	218	19	18	22	39	1.93
4763213--4763239	6	4.5	6	100	0	54	0	14	51	33	1.43
4769906--4769950	20	2.2	20	96	0	81	33	20	15	31	1.93
4772588--4772626	14	2.8	14	84	0	51	23	7	0	69	1.14
4773463--4773525	26	2.4	26	100	0	126	25	0	15	58	1.37
4776668--4776706	20	2.1	19	85	9	53	35	10	12	41	1.77
4779460--4779491	12	2.6	12	95	5	55	84	3	6	6	0.86
4780303--4780346	19	2.4	19	84	3	54	13	18	0	68	1.22
4782326--4782370	17	2.6	17	89	0	72	15	2	4	77	1.02

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