genome.fa.s7984.2.7.7.80.10.50.1000.27.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  27  of  65  ( 7696 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)
5359829--5359887	21	2.9	21	82	2	75	33	40	18	6	1.77
5360468--5360509	22	1.9	22	85	0	57	30	14	33	21	1.93
5363282--5363368	43	2.0	44	88	2	131	29	11	24	34	1.90
5363447--5363504	20	2.8	20	71	2	53	12	8	12	67	1.43
5366289--5366336	9	5.7	9	80	14	57	85	0	14	0	0.60
5366287--5366336	24	2.2	22	89	7	73	86	0	14	0	0.58
5366788--5366854	32	2.1	32	85	0	89	47	19	13	19	1.82
5370748--5370799	22	2.4	22	93	0	86	36	11	15	36	1.84
5371650--5371794	73	2.0	73	86	2	202	31	17	11	39	1.85
5371692--5371794	36	2.8	36	71	10	93	31	20	12	35	1.90
5371816--5372503	122	5.7	121	84	6	839	40	15	18	25	1.89
5372057--5372503	121	3.7	122	89	2	659	42	13	17	26	1.87
5372880--5372913	3	11.3	3	93	0	59	29	0	0	70	0.87
5372971--5373046	21	3.7	21	80	1	91	32	34	23	9	1.87
5381533--5381572	20	2.0	20	85	0	53	37	17	10	35	1.83
5391773--5391815	20	2.2	20	86	0	59	37	18	11	32	1.87
5393259--5393312	23	2.3	23	87	0	72	53	11	5	29	1.59
5396763--5396835	32	2.3	32	90	4	114	10	20	34	34	1.88
5396763--5396845	31	2.7	29	87	9	103	10	22	33	32	1.89
5402174--5402204	2	16.0	2	93	6	55	51	0	0	48	1.00
5409221--5409364	75	1.9	75	89	0	225	29	25	18	27	1.98
5414874--5415087	105	2.0	108	89	4	335	23	19	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5416035--5416144	37	2.8	37	84	12	116	36	17	19	27	1.94
5416072--5416172	42	2.4	42	91	0	166	33	21	16	27	1.95
5416214--5416463	52	4.6	54	79	7	222	39	18	11	30	1.86
5416685--5416793	36	3.0	36	87	1	155	36	13	22	26	1.92
5416930--5417019	37	2.4	36	83	1	99	47	7	14	30	1.72
5417906--5417963	20	2.6	22	86	10	75	29	24	22	24	1.99
5419431--5419463	15	2.2	15	100	0	66	45	12	18	24	1.83
5419512--5419664	37	4.4	37	66	21	121	43	9	17	29	1.81
5419446--5419670	103	2.2	103	96	0	414	42	10	17	29	1.83
5427831--5427925	47	2.0	47	93	0	163	45	27	7	20	1.77
5430993--5431255	116	2.3	116	97	0	508	26	22	22	28	1.99
5432306--5432343	3	12.7	3	100	0	76	68	0	0	31	0.90
5435162--5435205	18	2.4	18	88	7	63	70	0	9	20	1.14
5436067--5436139	23	3.2	23	72	0	65	64	5	1	28	1.24
5441395--5441425	16	1.9	16	93	0	53	67	9	0	22	1.19
5441428--5441490	19	3.3	18	75	6	54	11	15	0	73	1.10
5442684--5442708	6	4.2	6	100	0	50	16	0	48	36	1.46
5445231--5445272	21	2.0	21	90	0	66	26	30	21	21	1.98
5445482--5445541	29	2.0	31	90	6	97	41	16	6	35	1.75
5447220--5447261	18	2.3	18	88	8	59	71	0	4	23	1.05
5447272--5447315	19	2.4	18	92	3	70	68	0	9	22	1.18
5453733--5453758	5	5.2	5	100	0	52	0	19	57	23	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5455502--5455552	21	2.3	22	83	10	59	56	1	0	41	1.10
5457340--5457380	18	2.4	16	84	15	55	26	2	0	70	0.99
5457313--5457370	25	2.5	22	76	17	55	24	3	0	72	1.00
5457935--5457973	17	2.2	19	90	9	64	25	0	0	74	0.82
5457037--5458225	593	2.0	593	99	0	2333	28	15	17	38	1.90
5459264--5459301	20	1.9	19	89	5	58	34	0	0	65	0.93
5459786--5459811	13	2.0	13	100	0	52	23	23	23	30	1.99
5463592--5463618	4	6.8	4	100	0	54	77	0	0	22	0.76
5465012--5465275	36	7.0	36	76	15	182	46	6	3	42	1.48
5465083--5465290	38	5.5	37	81	13	214	45	8	3	42	1.52
5465012--5465275	38	7.0	39	77	17	176	46	6	3	42	1.48
5465845--5466307	84	5.5	84	82	3	475	23	19	23	33	1.97
5465852--5466306	168	2.7	167	83	4	556	23	19	23	32	1.97
5467479--5467674	95	2.1	94	86	1	275	32	18	16	32	1.93
5471526--5471587	4	16.0	4	71	18	51	75	1	0	22	0.88
5471526--5471575	11	4.6	11	75	5	57	74	2	0	24	0.93
5471552--5471586	18	2.0	17	88	5	52	82	2	0	14	0.77
5471659--5471787	34	3.7	34	69	20	88	47	5	2	44	1.38
5471766--5471985	26	8.5	26	95	3	367	45	7	3	43	1.49
5471953--5472027	39	1.9	39	91	5	125	42	9	2	45	1.50
5481981--5482031	19	2.7	19	79	8	68	50	1	0	47	1.12
5481994--5482056	31	2.0	31	84	0	81	47	6	3	42	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5482006--5482096	31	2.9	31	78	0	92	48	7	4	39	1.52
5482412--5482452	21	2.0	21	95	0	73	31	31	17	19	1.95
5482548--5482575	13	2.2	13	100	0	56	32	32	14	21	1.93
5482568--5482606	6	6.5	6	100	0	78	33	51	15	0	1.44
5483105--5483165	6	10.5	6	98	1	108	0	16	52	31	1.44
5484149--5484177	12	2.3	13	94	5	51	0	0	10	89	0.48
5485480--5485554	30	2.5	30	77	2	87	58	18	5	17	1.57
5487985--5488043	23	2.5	24	79	17	63	69	5	1	23	1.18
5488403--5488468	19	3.6	19	76	13	75	27	0	3	69	1.03
5488542--5488622	20	4.2	20	71	17	71	35	2	1	60	1.18
5489217--5489313	28	3.4	27	72	16	70	43	6	3	47	1.44
5489235--5489296	30	2.1	31	81	6	74	38	6	3	51	1.44
5499379--5499464	35	2.5	35	86	0	109	40	19	1	38	1.60
5499433--5499475	21	2.0	21	100	0	86	46	13	0	39	1.44
5499593--5499629	15	2.4	16	86	13	51	32	2	5	59	1.34
5500093--5500340	130	1.9	130	92	1	417	37	13	14	35	1.85
5505637--5505667	16	1.9	16	100	0	62	25	6	29	38	1.81
5506007--5506087	23	3.5	22	73	8	63	23	23	18	34	1.96
5512765--5512865	45	2.2	45	80	3	123	39	11	15	32	1.84
5512779--5512912	45	3.0	45	81	3	128	36	10	17	35	1.85
5512985--5513082	46	2.1	46	86	3	135	14	24	25	35	1.93
5512985--5513082	23	4.3	23	85	0	115	14	24	25	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5512985--5513107	46	2.7	47	81	11	121	15	23	25	35	1.94
5513703--5513733	16	1.9	16	93	0	53	54	3	6	35	1.42
5517615--5517649	2	17.5	2	100	0	70	48	0	0	51	1.00
5517683--5517754	12	5.8	13	78	18	73	33	0	1	65	1.02
5517684--5517754	25	2.9	25	81	10	76	33	0	1	64	1.02
5517905--5517951	23	2.0	23	84	8	60	17	10	0	72	1.12
5521937--5521971	13	2.7	13	100	0	70	14	22	22	40	1.90
5528332--5528372	13	3.2	13	80	19	50	82	2	14	0	0.76
5528332--5528366	18	1.9	18	88	11	54	82	2	14	0	0.77
5528329--5528371	20	2.1	21	86	4	61	81	2	16	0	0.79
5528995--5529539	118	4.4	118	77	10	457	35	25	14	24	1.93
5529257--5529287	15	2.1	15	100	0	62	38	29	12	19	1.89
5529023--5529729	261	2.8	254	81	8	679	35	25	15	24	1.94
5531754--5531791	20	1.9	19	89	5	58	21	5	2	71	1.19
5531939--5531992	14	3.9	14	87	2	65	29	0	0	70	0.88
5531945--5531998	14	3.8	14	80	7	56	24	0	0	75	0.80
5532242--5532321	35	2.3	35	91	2	124	41	27	21	10	1.85
5532421--5532484	32	2.0	32	93	6	112	50	12	15	21	1.77
5537707--5537743	17	2.2	17	95	0	65	48	0	8	43	1.32
5537715--5537811	51	1.9	51	91	4	162	42	3	6	48	1.44
5538511--5538566	3	18.7	3	82	14	62	39	0	0	60	0.97
5538513--5538566	28	2.0	28	89	10	85	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5539906--5539935	3	10.0	3	92	0	51	33	3	0	63	1.11
5539943--5539988	22	2.1	22	84	8	58	54	0	0	45	0.99
5540021--5540253	120	2.0	117	81	7	274	36	7	8	47	1.63
5540761--5540844	33	2.6	33	80	14	88	28	7	2	61	1.35
5542348--5542386	15	2.6	15	91	0	60	41	5	25	28	1.77
5544088--5544117	14	2.1	14	93	0	51	26	20	10	43	1.83
5547853--5547883	9	3.6	9	91	8	55	22	22	0	54	1.44
5551359--5551409	10	5.6	9	77	17	52	84	0	13	1	0.71
5551359--5551388	10	3.1	10	90	9	53	90	0	10	0	0.47
5551351--5551409	26	2.3	26	88	5	84	83	0	13	3	0.78

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65