genome.fa.s8243.2.7.7.80.10.50.1000.25.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  25  of  49  ( 5786 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)
5323313--5323362	20	2.5	20	96	0	91	42	10	14	34	1.78
5323445--5323509	26	2.4	28	80	14	73	44	1	4	49	1.32
5323855--5323974	42	2.9	42	94	0	213	44	18	20	17	1.87
5324100--5324179	26	3.3	26	68	28	84	22	2	15	60	1.47
5324095--5324200	47	2.2	48	98	1	205	22	1	13	62	1.40
5324956--5325002	2	24.5	2	87	8	71	51	2	0	46	1.13
5326892--5326923	15	2.2	15	94	5	57	50	0	0	50	1.00
5326907--5327010	42	2.5	41	83	7	129	43	0	1	53	1.18
5327841--5327971	47	2.8	46	91	3	210	36	13	6	42	1.71
5327841--5327954	47	2.4	47	97	1	212	35	14	6	44	1.69
5328545--5328590	4	10.8	4	88	4	56	23	4	21	50	1.67
5329669--5329710	5	8.4	5	83	0	57	57	23	0	19	1.41
5329679--5329718	20	2.0	20	95	0	71	57	27	0	15	1.38
5330093--5330139	23	2.0	24	84	12	62	55	6	0	38	1.26
5331939--5332099	80	2.0	79	84	3	207	34	13	10	41	1.79
5334570--5335113	272	2.0	272	98	1	1065	29	20	23	25	1.99
5346926--5346962	5	7.8	5	82	11	51	2	21	54	21	1.58
5346926--5346959	9	3.7	9	88	4	50	2	20	55	20	1.56
5346925--5346971	23	2.0	23	91	0	76	6	25	48	19	1.72
5346959--5347018	19	3.2	18	84	11	75	25	30	30	15	1.95
5346959--5347018	9	6.3	9	83	9	66	25	30	30	15	1.95
5350524--5350651	42	3.0	42	83	2	150	31	16	29	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5360231--5360259	2	14.5	2	100	0	58	51	0	0	48	1.00
5360428--5360527	24	4.2	24	74	5	94	47	17	14	22	1.82
5360421--5360529	48	2.3	48	77	0	119	48	16	13	21	1.80
5362996--5363045	10	5.8	9	86	13	54	26	24	32	18	1.97
5363016--5363045	15	2.0	15	100	0	60	26	26	33	13	1.93
5362997--5363051	8	6.5	8	83	12	58	23	23	34	18	1.96
5363038--5363083	23	2.0	23	95	0	83	8	19	52	19	1.72
5365837--5365875	2	19.5	2	100	0	78	48	0	0	51	1.00
5366224--5366433	106	2.0	105	91	0	339	33	9	17	39	1.82
5367829--5367860	13	2.5	13	94	0	55	21	15	18	43	1.87
5371547--5371589	2	21.5	2	100	0	86	51	0	0	48	1.00
5379030--5379214	60	3.1	60	74	5	194	38	9	19	32	1.83
5380139--5380169	15	2.1	15	100	0	62	25	6	32	35	1.82
5396454--5397052	324	1.8	324	89	3	947	35	14	11	38	1.83
5406383--5406589	18	11.2	18	71	12	136	27	9	20	42	1.82
5406385--5406589	36	5.6	36	79	6	205	27	9	20	43	1.82
5415068--5415128	23	2.9	21	82	7	70	21	32	26	19	1.97
5420838--5420885	22	2.2	23	85	14	75	39	14	14	31	1.86
5421494--5421576	39	2.1	40	84	6	107	28	20	7	43	1.78
5422384--5422465	8	10.2	8	75	0	65	34	1	29	35	1.66
5429947--5429984	17	2.2	17	90	9	60	47	13	0	39	1.42
5430850--5430891	9	4.4	9	85	11	57	71	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5430850--5430891	3	14.3	3	80	5	50	71	0	28	0	0.86
5432711--5432739	14	2.0	15	93	6	51	62	13	6	17	1.52
5434988--5435034	23	2.1	23	84	4	60	36	12	17	34	1.87
5436082--5436150	20	3.3	19	75	18	57	39	21	4	34	1.73
5436086--5436130	23	2.0	23	86	8	65	42	22	2	33	1.66
5436543--5436627	37	2.2	38	91	4	136	16	14	21	48	1.81
5436886--5436922	18	2.1	18	89	0	56	51	10	5	32	1.60
5437560--5437622	23	2.7	23	87	0	90	39	19	6	34	1.77
5439493--5439835	183	1.9	183	93	1	589	33	16	13	35	1.89
5441253--5441306	3	18.0	3	84	0	72	25	33	3	37	1.74
5441253--5441310	12	4.8	12	93	0	80	25	32	5	36	1.78
5441253--5441321	18	3.8	18	86	0	75	23	33	5	37	1.79
5441266--5441318	12	4.4	12	92	0	70	22	33	7	35	1.83
5442778--5443897	198	5.6	198	98	0	2150	32	16	15	36	1.90
5444700--5444753	3	18.0	3	84	0	72	25	33	3	37	1.74
5444700--5444757	12	4.8	12	93	0	80	25	32	5	36	1.78
5444700--5444768	18	3.8	18	86	0	75	23	33	5	37	1.79
5444713--5444765	12	4.4	12	92	0	70	22	33	7	35	1.83
5446226--5447346	199	5.6	199	98	0	2176	32	16	15	36	1.90
5448113--5448181	3	23.0	3	78	0	66	23	33	7	36	1.82
5449641--5451004	198	6.9	198	98	0	2617	31	16	15	36	1.90
5449641--5451004	593	2.3	594	97	1	2617	31	16	15	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5451123--5451170	19	2.6	19	93	3	80	56	10	2	31	1.45
5452966--5453031	33	2.0	33	90	0	105	22	48	0	28	1.51
5455348--5455390	20	2.3	18	85	14	61	20	16	11	51	1.75
5455353--5455399	20	2.4	19	82	10	67	19	17	10	53	1.72
5455521--5455578	19	3.0	19	78	12	64	17	15	15	51	1.76
5462153--5462226	39	1.9	39	94	2	132	37	6	10	44	1.66
5464498--5464545	23	2.1	23	84	0	60	37	8	18	35	1.81
5464970--5465032	23	2.7	23	92	0	99	38	20	4	36	1.74
5465178--5465219	22	1.9	22	85	9	59	45	0	4	50	1.23
5465396--5465458	23	2.7	23	92	0	99	38	20	4	36	1.74
5464619--5465668	426	2.4	426	95	3	1887	39	12	7	40	1.72
5465879--5465964	39	2.2	39	93	0	145	18	13	18	48	1.80
5466221--5466257	18	2.1	18	89	0	56	51	10	5	32	1.60
5466689--5466742	23	2.3	23	90	0	81	42	14	5	37	1.69
5468723--5470250	198	7.7	198	98	0	2936	32	16	14	35	1.90
5469665--5469702	15	2.5	15	80	16	51	18	10	23	47	1.79
5468723--5470250	592	2.6	593	98	0	2950	32	16	14	35	1.90
5470375--5470423	19	2.6	19	90	6	73	55	10	4	30	1.52
5472215--5472280	33	2.0	33	90	0	105	22	48	0	28	1.51
5472314--5472378	21	3.1	21	80	6	69	15	29	15	40	1.88
5474609--5474651	20	2.3	18	85	14	61	20	16	11	51	1.75
5474614--5474660	20	2.4	19	82	10	67	19	17	10	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5474782--5474827	20	2.3	20	89	10	76	17	17	10	54	1.70
5478376--5478401	2	13.0	2	100	0	52	50	0	0	50	1.00
5480519--5480552	16	2.1	17	88	5	52	58	0	17	23	1.38
5483958--5485825	376	5.0	377	92	2	2926	31	12	9	46	1.74
5483958--5485825	751	2.5	751	90	3	2954	31	12	9	46	1.74
5495272--5495327	29	1.9	29	82	7	69	28	14	8	48	1.74
5498982--5499011	14	2.1	14	93	0	51	46	33	6	13	1.69
5499334--5499384	21	2.4	21	83	0	57	25	19	27	27	1.99
5516675--5516835	87	1.9	87	87	0	241	22	21	27	27	1.99
5516823--5517164	165	2.1	165	87	2	490	23	26	24	25	2.00
5518256--5518293	19	2.0	19	100	0	76	42	5	21	31	1.75
5522182--5522269	2	44.0	2	97	0	167	48	0	1	50	1.08
5527166--5527190	2	12.5	2	100	0	50	52	0	0	48	1.00
5536048--5536107	20	3.0	20	97	0	111	30	18	20	31	1.96
5540324--5540348	10	2.5	10	100	0	50	44	0	44	12	1.41
5546139--5546163	13	1.9	13	100	0	50	40	0	36	24	1.55
5554431--5554514	24	3.5	24	83	3	98	27	19	17	35	1.94
5554713--5554760	20	2.6	18	84	12	69	27	8	12	52	1.67
5554719--5554761	20	2.2	20	100	0	86	27	9	9	53	1.63
5569503--5569531	1	29.0	1	100	0	58	0	0	0	100	0.00
5570555--5570583	2	14.5	2	100	0	58	48	0	0	51	1.00
5571165--5571294	59	2.2	58	76	6	127	33	16	13	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5572779--5572844	23	2.9	23	97	0	123	27	21	18	33	1.96
5573085--5573121	3	12.3	3	100	0	74	32	0	0	67	0.91
5581134--5581209	21	3.7	20	76	13	73	25	36	15	22	1.93
5582987--5583204	102	2.1	101	78	4	224	29	20	18	31	1.96
5585441--5585487	19	2.5	19	86	6	60	34	0	0	65	0.93
5586678--5586738	30	2.0	30	90	6	97	39	3	16	40	1.65
5587575--5587604	12	2.5	12	100	0	60	50	6	33	10	1.62
5598870--5598918	24	2.0	24	100	0	98	40	12	4	42	1.61
5600440--5600490	22	2.2	25	77	19	58	49	1	15	33	1.56
5600851--5600893	18	2.4	18	92	7	70	51	4	2	41	1.35

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