genome.fa.s1129.2.7.7.80.10.50.1000.26.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  26  of  89  ( 10573 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)
5572090--5572271	23	7.8	25	67	18	90	56	0	0	42	1.07
5572080--5572271	34	5.7	34	78	13	168	56	0	0	42	1.07
5572339--5572392	21	2.6	21	90	0	90	31	33	11	24	1.90
5573165--5573236	2	36.0	2	100	0	144	50	0	0	50	1.00
5580285--5580443	77	2.0	78	81	4	187	45	5	11	37	1.63
5581896--5581942	20	2.3	20	82	10	60	31	36	0	31	1.58
5584593--5584643	24	2.1	24	100	0	102	19	3	29	47	1.68
5584874--5584920	23	2.0	23	87	0	67	12	21	19	46	1.82
5597803--5597840	19	2.0	19	100	0	76	47	10	21	21	1.80
5599434--5599516	31	2.6	32	72	12	89	26	31	26	15	1.96
5599377--5599516	63	2.2	63	82	8	160	26	28	27	17	1.97
5600379--5600409	7	4.4	7	91	0	53	29	29	25	16	1.96
5600400--5600441	22	1.9	22	100	0	84	9	23	47	19	1.78
5600438--5600536	9	10.3	9	77	10	90	29	28	27	15	1.96
5600440--5600537	19	5.1	19	80	13	101	29	28	25	16	1.97
5600463--5600537	29	2.5	31	91	8	129	29	28	26	16	1.96
5606766--5606841	31	2.4	31	80	2	89	27	31	26	14	1.95
5606718--5606841	63	2.0	63	82	9	155	26	29	27	16	1.97
5607724--5607766	22	2.0	22	100	0	86	9	23	48	18	1.76
5607795--5607891	19	4.9	19	79	14	108	29	26	26	16	1.97
5607796--5607871	10	7.8	10	76	18	72	27	27	27	17	1.97
5607788--5607891	29	3.6	29	94	5	183	28	27	26	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5611217--5611377	80	2.0	80	89	1	243	33	15	13	37	1.86
5611337--5611399	25	2.5	25	92	0	99	33	12	17	36	1.88
5615119--5615199	31	2.6	31	86	7	112	44	28	11	16	1.81
5616705--5616747	15	2.9	15	89	6	61	0	23	0	76	0.78
5616705--5616747	8	5.6	8	79	20	56	0	23	0	76	0.78
5616720--5616753	15	2.3	15	89	0	50	2	20	2	73	1.09
5616705--5616754	23	2.2	23	82	7	57	2	20	2	76	0.99
5618012--5618056	22	2.0	23	91	4	74	48	2	11	37	1.51
5620403--5620445	23	1.9	22	90	4	68	13	11	4	69	1.33
5626569--5626611	23	1.9	22	90	4	68	13	11	4	69	1.33
5627087--5627135	21	2.3	21	82	0	62	24	24	24	26	2.00
5627658--5627690	17	1.9	17	93	0	57	15	3	6	75	1.11
5628893--5628962	20	3.5	20	78	1	70	38	8	17	35	1.80
5628954--5629022	21	3.3	21	95	0	120	40	21	17	20	1.91
5629073--5629129	21	2.7	21	86	0	87	38	17	19	24	1.93
5629471--5629537	34	2.0	34	85	5	91	32	13	26	26	1.94
5631892--5631945	21	2.6	21	87	0	72	40	14	14	29	1.86
5635833--5635866	16	2.1	17	88	5	52	76	2	0	20	0.92
5641280--5641323	20	2.1	21	84	12	56	31	2	2	63	1.19
5641280--5641338	19	2.9	19	80	7	55	33	1	1	62	1.15
5641628--5641739	39	3.0	37	87	6	163	27	3	6	62	1.36
5641675--5641755	37	2.1	38	82	8	94	33	6	7	53	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5642074--5642124	21	2.4	21	96	0	93	27	19	7	45	1.78
5643721--5643759	20	2.0	20	89	0	60	33	10	23	33	1.88
5644837--5644865	15	1.9	15	100	0	58	34	17	27	20	1.95
5645744--5645788	23	2.0	23	81	0	54	13	24	24	37	1.91
5645812--5645890	24	3.3	24	94	0	131	22	18	18	39	1.93
5646109--5646167	6	9.8	6	83	0	64	42	1	20	35	1.62
5646105--5646167	18	3.5	18	82	0	72	42	1	20	34	1.62
5650144--5650241	23	4.3	23	77	1	90	18	17	25	38	1.92
5650235--5650289	24	2.3	24	83	0	65	20	23	20	36	1.95
5650509--5650572	6	10.7	6	77	0	56	40	3	20	35	1.68
5650505--5650539	18	1.9	18	94	0	61	45	8	17	28	1.77
5650532--5650572	18	2.3	18	86	0	64	39	0	21	39	1.54
5650509--5650573	24	2.7	23	83	4	67	40	3	21	35	1.69
5665808--5665849	19	2.3	19	84	12	52	80	7	2	9	0.97
5668957--5668994	19	1.9	20	89	10	60	65	23	0	10	1.23
5671194--5671226	16	2.1	16	94	0	57	57	0	3	39	1.14
5671386--5671428	22	2.0	22	90	9	70	53	2	0	44	1.13
5684416--5684509	42	2.3	41	75	15	95	21	17	8	53	1.70
5686191--5686246	21	2.7	21	94	5	96	33	19	12	33	1.89
5687208--5687363	42	3.8	41	76	10	113	31	14	19	34	1.92
5695971--5696001	7	4.4	7	91	0	53	29	29	25	16	1.96
5695998--5696065	5	12.8	5	82	11	82	5	22	52	19	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5695991--5696060	22	3.2	22	100	0	140	8	22	50	18	1.74
5696062--5696160	9	10.3	9	75	10	72	30	26	27	16	1.96
5696090--5696161	29	2.4	31	88	9	114	29	25	27	18	1.98
5696062--5696160	19	5.2	19	73	17	71	30	26	27	16	1.96
5703312--5703342	7	4.4	7	100	0	62	25	29	29	16	1.96
5703339--5703401	5	11.8	5	77	12	63	7	22	50	19	1.72
5703332--5703408	22	3.5	22	96	0	145	11	23	46	18	1.81
5703421--5703495	29	2.5	31	89	8	120	29	26	26	17	1.97
5703404--5703494	19	4.7	19	75	17	71	29	27	26	16	1.97
5703421--5703495	9	7.8	9	80	11	69	29	26	26	17	1.97
5706533--5706578	17	2.8	17	78	21	62	60	28	0	10	1.30
5708035--5708069	18	1.9	18	94	0	61	65	14	2	17	1.38
5714223--5714272	20	2.5	20	93	6	84	24	16	30	30	1.96
5714644--5714679	18	2.0	18	100	0	72	50	5	11	33	1.61
5715707--5715768	31	2.0	31	83	3	79	32	9	9	48	1.69
5719631--5719672	17	2.5	17	80	3	50	30	16	19	33	1.94
5723935--5724027	45	2.1	45	95	0	168	30	23	11	34	1.91
5741035--5741436	55	7.3	55	85	2	481	27	19	18	33	1.96
5749155--5749459	55	5.5	55	91	0	477	27	19	17	35	1.94
5749084--5749458	165	2.3	164	88	3	531	27	18	18	35	1.95
5749084--5749479	55	7.2	54	83	7	469	27	18	18	34	1.95
5752153--5752200	25	1.9	25	91	0	78	12	33	29	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5752491--5752529	20	2.0	20	89	0	60	33	17	10	38	1.84
5766412--5766453	20	2.0	21	86	9	59	28	2	40	28	1.69
5771181--5771226	20	2.4	19	82	17	60	21	28	19	30	1.98
5781442--5781493	11	4.9	11	79	11	56	34	0	0	65	0.93
5792676--5792786	35	3.2	35	93	0	177	42	19	0	37	1.52
5792790--5792857	35	1.9	35	90	0	109	32	0	23	44	1.54
5804407--5804565	64	2.5	64	80	4	169	25	23	16	33	1.96
5808094--5808131	20	1.9	20	94	0	67	23	18	21	36	1.95
5808204--5808250	19	2.5	20	80	16	57	21	23	19	36	1.95
5808138--5808300	64	2.5	65	80	3	179	23	23	17	34	1.96
5810931--5811011	35	2.3	35	97	0	153	35	23	18	22	1.95
5811845--5811906	25	2.5	25	100	0	124	19	19	30	30	1.96
5824481--5824599	21	5.8	21	88	2	163	26	30	21	21	1.99
5824460--5824581	63	2.0	60	88	4	181	27	28	20	23	1.99
5829853--5829887	18	1.9	18	100	0	70	25	34	22	17	1.96
5834216--5834258	21	2.0	21	100	0	86	34	9	18	37	1.83
5838643--5838670	3	9.3	3	100	0	56	32	0	0	67	0.91
5845027--5845104	29	2.6	30	79	4	86	28	19	7	44	1.78
5848357--5848450	46	2.1	45	80	9	104	30	28	10	29	1.90
5848683--5848717	18	1.9	18	88	11	54	51	0	14	34	1.42
5857168--5857208	19	2.2	19	95	0	73	31	17	21	29	1.96
5857185--5857239	22	2.6	22	80	5	60	27	16	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5857602--5857961	55	6.6	55	82	4	392	36	18	17	27	1.94
5869410--5869467	29	2.0	29	86	3	80	36	15	10	37	1.82
5869427--5869487	29	2.1	29	87	0	86	32	13	13	40	1.82
5879449--5879485	12	3.1	12	88	0	56	24	32	0	43	1.55
5880092--5880213	62	2.0	62	85	6	167	54	4	8	33	1.49
5881255--5881356	22	4.8	22	85	5	113	31	31	21	15	1.95
5885855--5885959	22	5.0	21	77	16	96	33	31	19	16	1.93
5891129--5891198	32	2.2	32	94	0	122	37	0	34	28	1.58
5907996--5908064	18	3.8	18	82	1	75	55	5	13	26	1.60
5913183--5913425	123	2.0	123	95	0	441	38	13	10	37	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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89