genome.fa.s8209.2.7.7.80.10.50.1000.22.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  22  of  30  ( 3569 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)
5041479--5041592	25	4.7	25	69	15	69	42	5	7	43	1.56
5041423--5041605	73	2.5	72	83	7	210	42	4	7	45	1.53
5042593--5042917	54	6.0	54	94	0	551	35	16	14	33	1.89
5043333--5043389	20	2.8	20	81	5	69	24	19	14	42	1.88
5043267--5043461	94	2.1	94	81	5	225	25	21	11	42	1.86
5043447--5043498	20	2.8	18	80	16	61	32	19	13	34	1.90
5048670--5048843	54	3.2	54	95	0	303	35	16	14	33	1.89
5055797--5055823	14	1.9	14	100	0	54	14	3	37	44	1.63
5061781--5061811	2	15.5	2	93	0	53	45	3	0	51	1.17
5067896--5068018	31	4.0	31	81	10	144	21	17	21	40	1.91
5067896--5068018	62	2.0	62	87	3	176	21	17	21	40	1.91
5068773--5068811	20	2.0	20	84	0	51	28	17	15	38	1.91
5072305--5072343	18	2.2	18	95	0	69	25	35	15	23	1.94
5076943--5076981	18	2.2	18	95	0	69	25	35	15	23	1.94
5079727--5079854	31	4.1	31	74	9	125	28	17	20	33	1.96
5083809--5083915	31	3.4	32	75	8	103	31	17	17	32	1.94
5085433--5085491	30	2.0	30	86	3	84	59	8	0	32	1.28
5094616--5094679	25	2.4	27	76	19	73	42	4	1	51	1.32
5095779--5095861	31	2.7	31	86	3	114	19	18	10	51	1.74
5096141--5096215	30	2.6	29	89	6	118	49	6	13	30	1.67
5100842--5101233	195	2.0	195	91	1	642	40	18	13	27	1.88
5102420--5102520	2	53.5	2	88	11	160	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5102535--5102579	22	2.0	22	100	0	90	48	26	4	20	1.68
5105250--5105552	163	1.9	163	99	0	597	33	8	18	39	1.80
5105642--5105791	73	2.1	73	98	0	291	41	8	24	26	1.82
5105902--5106004	30	3.4	30	93	0	170	25	19	23	32	1.98
5107163--5107211	19	2.6	19	96	0	89	34	0	22	42	1.54
5109108--5109244	64	2.2	63	84	6	170	33	16	23	26	1.96
5109256--5109293	20	1.9	20	94	0	67	31	18	26	23	1.97
5109994--5110096	30	3.4	30	94	0	179	23	20	25	31	1.98
5118192--5118405	106	2.0	107	99	0	421	37	9	25	27	1.86
5119132--5119178	21	2.2	21	96	0	85	40	8	34	17	1.79
5119132--5119184	21	2.5	21	90	0	70	43	7	32	16	1.76
5119230--5119295	33	2.0	33	93	0	114	30	0	46	22	1.52
5121368--5122104	200	3.7	201	92	1	1169	36	13	16	32	1.89
5123575--5123620	12	3.8	12	91	0	74	39	8	32	19	1.82
5124928--5125382	251	1.8	252	87	3	684	36	14	17	31	1.90
5128140--5128297	73	2.2	73	80	10	173	32	17	21	29	1.96
5128697--5128741	23	2.0	23	95	0	81	37	17	6	37	1.76
5128696--5128748	23	2.3	23	86	0	70	37	20	5	35	1.77
5130195--5131043	453	1.9	454	91	1	1400	26	21	25	26	2.00
5134662--5134688	2	13.5	2	100	0	54	51	48	0	0	1.00
5134931--5134999	23	3.0	23	82	4	86	28	26	24	20	1.99
5135835--5135929	20	4.7	19	81	10	91	22	24	22	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5135917--5136037	64	1.9	63	81	5	145	24	20	22	32	1.98
5136514--5136543	9	3.3	9	90	0	51	56	0	43	0	0.99
5138340--5138391	2	26.0	2	100	0	104	50	0	0	50	1.00
5140659--5140727	23	3.0	23	79	8	77	31	26	21	20	1.98
5141603--5141745	64	2.2	63	80	10	157	25	20	20	32	1.97
5144262--5144348	35	2.5	34	77	18	90	55	9	8	27	1.60
5149989--5150035	24	2.0	24	91	0	76	36	12	2	48	1.53
5151442--5151618	63	2.8	63	99	0	345	37	16	22	23	1.93
5152794--5152835	20	2.1	20	86	0	57	38	19	19	23	1.93
5152893--5153843	105	9.0	105	95	0	1652	22	18	25	33	1.96
5152893--5153843	316	3.0	314	94	1	1661	22	18	25	33	1.96
5152893--5153843	421	2.3	422	95	0	1692	22	18	25	33	1.96
5154650--5154675	1	26.0	1	100	0	52	0	0	0	100	0.00
5154591--5154709	63	1.9	63	87	6	179	11	18	11	57	1.63
5165484--5165610	68	1.9	63	89	7	191	37	16	22	24	1.94
5167006--5167115	57	1.9	58	90	5	179	35	23	14	26	1.93
5167514--5167634	57	2.1	57	89	0	179	25	13	24	36	1.92
5167601--5167652	21	2.5	21	87	6	70	28	11	26	32	1.91
5167601--5167720	20	5.9	20	75	10	75	26	11	27	34	1.91
5168806--5168864	31	1.9	31	85	0	82	18	15	8	57	1.63
5173613--5173871	37	7.2	37	74	13	204	45	3	5	45	1.43
5173744--5173805	27	2.4	26	84	7	81	41	1	6	50	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5173769--5173917	39	3.8	39	76	7	140	44	1	4	48	1.31
5173708--5173838	66	2.0	62	84	5	163	44	1	6	48	1.37
5173782--5173911	39	3.3	39	81	4	154	47	0	3	47	1.25
5173804--5173930	38	3.3	37	74	11	119	46	0	4	48	1.29
5173942--5173983	22	2.0	21	86	13	61	23	7	0	69	1.13
5175042--5175066	2	12.5	2	100	0	50	48	0	0	52	1.00
5175251--5175333	39	2.1	38	82	12	98	19	9	1	69	1.22
5177564--5177604	21	2.0	21	85	0	55	41	7	34	17	1.77
5180354--5180441	26	3.4	26	89	6	142	43	3	21	31	1.69
5180912--5180951	21	1.9	21	89	0	62	30	22	22	25	1.99
5181911--5182079	90	1.9	90	85	4	234	31	16	20	31	1.95
5183993--5184431	36	12.1	36	91	1	691	25	20	13	40	1.89
5184126--5184183	19	3.2	19	64	26	52	27	18	10	43	1.83
5184408--5184522	34	3.6	30	79	14	99	39	20	8	32	1.83
5184427--5184522	34	2.9	32	86	9	138	40	18	8	32	1.81
5184520--5185019	84	6.0	84	84	3	542	32	24	18	24	1.97
5184519--5184980	249	1.8	251	85	2	660	32	24	18	24	1.97
5185778--5185802	11	2.3	11	100	0	50	40	8	8	44	1.63
5185855--5185879	12	2.1	12	100	0	50	40	8	8	44	1.63
5185604--5185989	37	10.2	38	81	10	416	43	4	7	45	1.51
5192355--5192426	24	3.0	24	78	8	83	51	19	12	16	1.76
5194910--5194967	13	4.3	13	84	4	71	20	22	41	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5197054--5197141	24	3.7	24	80	3	97	48	18	13	19	1.80
5197059--5197118	12	5.0	12	68	8	50	50	20	13	16	1.78
5197052--5197155	24	4.3	24	71	11	88	49	17	15	18	1.81
5199636--5199690	13	4.2	13	85	0	74	18	20	43	18	1.88
5205258--5205311	23	2.3	23	87	0	72	40	25	20	12	1.88
5205395--5205497	44	2.4	44	83	4	111	28	18	12	40	1.87
5207947--5208038	44	2.0	46	89	4	143	36	7	22	32	1.83
5210976--5211013	2	19.0	2	100	0	76	50	0	0	50	1.00
5213777--5213831	24	2.3	24	90	0	83	38	23	20	18	1.93
5213832--5213917	44	1.9	46	90	4	140	32	27	23	16	1.96
5213790--5213920	23	5.8	23	83	8	130	34	26	23	15	1.94
5214391--5214422	15	2.0	17	88	11	50	40	21	6	31	1.78
5218384--5218454	3	23.7	3	100	0	142	67	0	0	32	0.91
5222010--5222040	15	2.1	15	93	0	53	54	9	19	16	1.68
5224087--5224203	59	2.0	59	94	0	207	17	20	17	44	1.87
5227920--5227978	31	1.9	31	92	0	100	55	11	16	15	1.68
5229689--5229734	20	2.1	23	84	11	62	23	21	21	32	1.98
5229972--5230019	20	2.4	20	96	0	87	20	35	14	29	1.93
5235267--5235379	20	5.7	20	92	0	190	40	18	19	21	1.91
5235366--5235417	20	2.6	20	96	0	95	32	25	21	21	1.98
5235267--5235399	60	2.2	60	90	2	205	39	19	19	21	1.93
5235597--5235662	22	3.0	22	86	0	78	25	37	13	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5236017--5236136	34	3.4	34	75	15	125	17	20	23	39	1.92
5236004--5236177	73	2.4	73	92	0	276	16	17	22	42	1.89
5236036--5236196	40	4.2	40	76	10	165	16	16	23	42	1.88
5236036--5236196	20	8.4	20	82	8	138	16	16	23	42	1.88
5236163--5236206	20	2.2	20	91	0	70	11	13	20	54	1.69
5238076--5238126	20	2.5	20	93	0	75	41	25	15	17	1.89
5238088--5238179	20	4.9	20	74	15	72	41	25	16	17	1.89
5238090--5238216	53	2.4	53	85	2	157	42	22	18	17	1.89
5238130--5238216	19	4.8	19	72	16	58	41	20	19	18	1.91
5238225--5238487	20	13.4	20	77	14	201	19	20	22	37	1.94

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