genome.fa.s1547.2.7.7.80.10.50.1000.23.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   50   51   

This is table  23  of  51  ( 6083 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)
4508877--4508990	24	4.8	24	80	10	128	39	20	13	27	1.89
4508874--4508990	48	2.5	46	86	8	148	40	20	12	26	1.88
4509968--4510020	26	2.0	26	85	0	70	26	20	16	35	1.94
4511422--4511458	18	2.1	18	89	0	56	16	21	45	16	1.84
4513395--4513470	24	3.2	24	84	3	73	43	21	11	23	1.85
4513412--4513527	24	4.8	24	87	6	155	38	19	14	26	1.91
4513443--4513545	48	2.1	48	82	7	120	41	18	13	26	1.87
4514505--4514557	26	2.0	26	85	0	70	26	20	16	35	1.94
4515923--4515955	15	2.2	15	94	0	57	24	30	33	12	1.91
4515950--4515996	18	2.6	18	89	0	67	12	23	44	19	1.85
4516679--4516751	30	2.4	30	83	0	92	49	16	6	27	1.71
4527828--4527945	20	5.8	20	78	5	101	24	22	17	34	1.96
4527850--4527945	41	2.3	41	89	3	140	23	21	18	35	1.96
4527828--4527956	21	6.3	21	79	7	131	26	22	17	33	1.96
4528823--4528872	24	2.1	24	92	0	82	22	20	20	38	1.94
4531404--4531469	19	3.7	19	75	19	79	45	19	22	12	1.83
4531475--4531572	19	5.7	19	65	22	63	12	24	18	44	1.84
4531479--4531572	33	2.8	33	95	0	161	12	24	18	44	1.84
4531679--4531717	14	2.8	13	88	11	60	46	17	0	35	1.49
4533568--4533727	19	8.8	19	72	15	124	46	20	22	11	1.82
4533568--4533698	39	3.5	38	79	13	155	48	19	21	10	1.79
4533592--4533724	33	3.8	33	87	6	167	45	20	23	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4533733--4533770	20	1.9	20	100	0	76	5	15	28	50	1.66
4533881--4534348	94	5.1	94	94	2	770	46	19	12	21	1.83
4536308--4536499	75	2.5	76	88	5	266	19	24	32	23	1.98
4542929--4542968	21	1.9	21	85	10	55	35	10	2	52	1.48
4544895--4545095	76	2.6	77	86	5	266	19	23	33	22	1.97
4545537--4545599	20	3.2	20	86	8	101	49	15	23	11	1.77
4545583--4545639	14	3.7	14	70	20	51	45	22	21	10	1.82
4545535--4545653	33	3.4	33	87	8	157	47	18	22	10	1.79
4545657--4545737	33	2.5	33	85	0	99	14	19	18	46	1.83
4545714--4545769	21	2.7	21	83	8	62	12	21	17	48	1.80
4545742--4545789	20	2.4	20	85	0	60	14	12	22	50	1.77
4545754--4545792	20	2.0	20	94	0	69	12	10	17	58	1.61
4546327--4546359	13	2.4	14	85	5	50	27	15	21	36	1.93
4546343--4546393	20	2.5	20	90	0	84	21	17	21	39	1.93
4546803--4546830	3	9.3	3	100	0	56	0	32	0	67	0.91
4562838--4562878	17	2.4	18	76	23	52	34	12	0	53	1.38
4565312--4565354	2	21.5	2	100	0	86	51	0	0	48	1.00
4566799--4566884	32	2.7	32	92	0	136	50	10	26	12	1.73
4567471--4567511	17	2.5	17	84	4	57	51	0	0	48	1.00
4567700--4567743	22	2.0	21	86	4	61	36	0	2	61	1.09
4567700--4567751	22	2.4	22	81	9	54	36	0	5	57	1.23
4567716--4567814	37	2.9	32	79	15	108	46	0	2	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4567716--4567814	33	2.9	32	81	15	110	46	0	2	51	1.12
4569844--4569896	22	2.4	22	96	0	97	41	24	13	20	1.88
4572330--4572552	54	4.2	54	83	7	260	24	25	22	27	2.00
4573966--4574032	21	3.2	20	76	17	66	46	11	1	40	1.50
4573981--4574040	21	2.9	20	74	18	52	45	11	1	41	1.50
4579263--4579397	67	2.0	65	91	5	218	43	9	2	43	1.52
4580194--4580252	4	15.8	4	83	13	72	23	50	25	0	1.49
4580194--4580252	14	3.9	16	78	17	72	23	50	25	0	1.49
4580250--4580279	2	15.0	2	100	0	60	50	50	0	0	1.00
4580626--4580778	32	4.8	32	87	4	186	33	20	18	27	1.96
4580626--4580779	63	2.4	61	83	9	193	33	20	18	27	1.96
4582708--4582778	36	2.0	36	88	0	106	36	18	16	28	1.93
4583476--4583508	16	2.0	17	88	5	50	42	6	0	51	1.26
4584687--4584749	31	2.0	31	90	0	99	42	11	9	36	1.73
4584684--4584738	16	3.5	16	71	14	51	45	10	10	32	1.74
4584706--4584750	16	2.9	16	78	15	58	44	8	11	35	1.71
4585736--4585799	29	2.2	29	100	0	128	51	9	3	35	1.50
4588281--4588336	24	2.3	24	100	0	112	30	23	26	19	1.98
4594444--4594471	2	14.0	2	100	0	56	50	0	0	50	1.00
4599872--4599911	6	7.0	6	88	8	57	20	27	35	17	1.95
4611755--4611858	45	2.3	45	85	3	129	35	20	20	24	1.96
4612276--4612326	20	2.4	21	81	15	61	50	0	15	33	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4612729--4612774	24	1.9	24	81	0	56	21	23	26	28	1.99
4613716--4613749	11	3.0	11	91	4	50	29	2	0	67	1.05
4613885--4613951	2	33.5	2	100	0	134	50	0	0	49	1.00
4615288--4615363	12	5.9	13	79	18	72	76	0	23	0	0.79
4615286--4615366	13	6.5	13	74	23	77	76	0	23	0	0.79
4615305--4615366	15	4.3	15	76	13	67	77	0	22	0	0.77
4615824--4615906	9	9.9	9	72	27	51	79	1	12	7	0.98
4615839--4615889	7	7.3	7	80	8	59	80	0	9	9	0.91
4615851--4615912	13	4.9	12	83	14	72	83	0	11	4	0.78
4615823--4615912	8	10.6	8	72	21	60	80	1	12	6	0.96
4618974--4619457	222	2.2	221	93	1	824	30	17	20	31	1.95
4619422--4619518	42	2.3	42	90	0	149	21	20	20	37	1.95
4619927--4619964	12	3.2	12	85	3	51	36	0	2	60	1.11
4619925--4619964	20	2.0	21	90	5	64	35	0	2	62	1.09
4620278--4620363	36	2.4	36	86	0	118	23	36	23	17	1.95
4621302--4621345	19	2.4	19	76	3	54	20	9	2	68	1.28
4622904--4623028	37	3.4	37	89	1	187	39	37	10	12	1.78
4623018--4623087	31	2.3	31	94	0	131	37	37	12	12	1.82
4623756--4623807	16	3.4	16	78	5	54	28	9	15	46	1.77
4629836--4629890	2	27.5	2	100	0	110	49	0	0	50	1.00
4644236--4644271	17	2.1	18	94	5	65	22	0	30	47	1.52
4649200--4649243	2	22.5	2	90	4	72	47	2	0	50	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4653122--4653278	41	3.8	41	82	5	172	28	19	18	33	1.96
4656308--4656603	43	7.0	41	81	4	245	26	21	18	33	1.96
4656298--4656612	86	3.7	85	80	6	298	26	21	18	33	1.96
4656506--4656618	43	2.6	42	84	2	136	25	19	21	33	1.97
4663358--4663716	180	2.0	177	95	4	643	38	21	10	29	1.87
4672604--4672655	22	2.4	22	84	9	70	57	0	0	42	0.98
4674724--4674759	18	1.9	19	94	5	65	66	0	0	33	0.92
4674948--4674974	14	1.9	14	100	0	54	37	3	0	59	1.15
4675090--4675869	43	18.1	43	75	4	478	30	16	21	31	1.95
4675090--4675193	40	2.5	40	85	4	127	31	11	22	34	1.90
4676064--4676130	34	1.9	34	82	14	84	50	17	10	20	1.75
4679044--4679217	76	2.3	76	81	9	187	41	5	22	29	1.77
4679095--4679212	38	3.1	38	79	6	132	40	6	23	28	1.80
4679113--4679253	76	1.9	76	80	3	167	43	6	21	29	1.77
4679419--4679464	19	2.4	19	82	10	58	47	2	0	50	1.13
4687668--4687817	32	4.7	32	89	1	221	28	28	28	15	1.96
4692776--4692854	31	2.5	31	91	0	122	26	22	32	17	1.96
4692776--4692868	31	3.0	31	84	3	80	29	24	29	17	1.97
4693556--4693612	22	2.6	22	80	8	71	42	19	14	24	1.88
4694632--4694805	32	5.4	32	86	5	226	27	25	27	19	1.99
4702288--4702413	25	5.0	25	68	3	81	37	32	0	29	1.63
4702288--4702410	51	2.4	51	83	2	140	35	33	0	30	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4710080--4710119	15	2.7	15	80	0	53	57	2	0	40	1.12
4713435--4713480	2	23.0	2	90	0	74	50	4	0	45	1.21
4713652--4713806	2	78.5	2	82	9	167	49	1	2	46	1.26
4715837--4717391	134	11.7	134	83	4	1658	31	19	19	30	1.96
4715848--4717391	394	3.9	394	83	3	1851	30	19	19	30	1.96
4717731--4717914	37	5.3	37	75	19	164	40	14	18	27	1.89
4717838--4717902	33	1.9	34	90	3	105	40	13	16	29	1.88
4717731--4717980	99	2.5	102	81	5	267	39	13	18	29	1.88
4718020--4718378	90	4.1	89	83	8	436	33	20	19	27	1.97
4719623--4719713	28	3.2	28	92	0	137	23	6	31	38	1.80

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   50   51