genome.fa.s8242.2.7.7.80.10.50.1000.19.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  19  of  73  ( 8740 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)
3930270--3930321	20	2.7	20	87	3	70	40	11	9	38	1.74
3930536--3930571	2	18.0	2	100	0	72	50	0	0	50	1.00
3935240--3935303	29	2.2	29	88	0	101	39	12	21	26	1.89
3939094--3939140	19	2.5	20	75	10	53	53	12	17	17	1.73
3942325--3942431	54	2.0	53	94	1	187	31	23	17	27	1.97
3942923--3942953	15	2.1	15	93	0	53	54	0	0	45	0.99
3945745--3945779	15	2.3	15	100	0	70	48	20	0	31	1.50
3948637--3948754	32	3.7	32	77	5	105	44	25	11	18	1.82
3948605--3948723	32	3.7	32	75	9	100	42	27	11	17	1.84
3948604--3948754	64	2.4	64	77	6	146	45	25	11	17	1.83
3949313--3949342	14	2.1	14	93	0	51	40	16	0	43	1.48
3951686--3951710	2	12.5	2	100	0	50	52	0	0	48	1.00
3952203--3952258	28	2.0	28	96	0	103	46	12	7	33	1.69
3952568--3952601	16	2.1	16	88	0	50	35	29	11	23	1.90
3954075--3954353	112	2.7	100	85	9	343	41	12	10	35	1.78
3954151--3954392	112	2.1	113	90	1	369	37	12	9	39	1.77
3957749--3957797	11	4.2	11	81	7	53	57	2	0	40	1.10
3957753--3957797	22	1.9	25	82	13	60	55	2	0	42	1.12
3960261--3960301	15	2.7	15	80	0	55	78	2	4	14	1.03
3960261--3960314	24	2.3	22	81	9	54	75	1	3	18	1.03
3961408--3961460	12	4.5	12	80	4	54	81	1	9	7	0.96
3961500--3961548	26	1.9	25	91	4	80	51	4	0	44	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3961511--3961800	37	7.8	38	79	9	316	45	7	1	45	1.41
3961548--3961603	26	2.2	26	100	0	112	46	7	0	46	1.30
3961574--3961794	76	2.9	75	89	6	309	44	7	2	45	1.43
3970875--3970923	18	2.8	17	90	6	64	26	8	2	63	1.34
3970881--3970923	18	2.4	18	96	0	77	30	9	2	58	1.42
3974850--3974911	32	2.0	30	84	6	79	32	9	22	35	1.87
3974892--3974960	28	2.5	28	90	4	104	14	8	33	43	1.76
3975030--3975100	34	2.1	34	86	2	99	15	8	30	45	1.76
3975583--3975630	18	2.8	18	93	6	82	29	33	6	31	1.82
3983871--3983911	20	2.0	20	85	0	55	73	4	4	17	1.19
3983880--3983942	28	2.1	31	82	8	78	74	3	3	19	1.09
3985147--3985199	26	2.1	24	86	6	70	54	1	0	43	1.11
3985162--3985458	37	7.8	38	79	11	288	45	6	1	46	1.36
3985187--3985296	26	4.3	26	70	16	86	46	6	0	46	1.34
3985239--3985267	2	14.5	2	100	0	58	48	0	0	51	1.00
3985199--3985255	26	2.2	26	90	3	87	47	7	0	45	1.30
3985166--3985452	76	3.8	75	85	8	379	46	5	1	46	1.36
3985511--3985541	9	3.4	9	95	0	53	12	0	19	67	1.22
3988394--3988485	46	2.0	46	97	0	175	34	11	21	31	1.90
3998491--3998530	20	2.0	20	90	0	62	32	0	20	47	1.50
3999204--3999230	14	1.9	14	100	0	54	48	0	7	44	1.31
4001490--4001534	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4003195--4003263	25	2.8	25	95	0	129	18	28	24	27	1.98
4003378--4003422	23	2.0	23	82	8	56	20	24	26	28	1.99
4009849--4009882	9	3.4	10	88	12	52	41	0	0	58	0.98
4012186--4012322	58	2.3	58	83	6	161	32	2	13	52	1.52
4012186--4012352	29	5.8	29	78	4	135	31	2	13	52	1.55
4012133--4012329	29	6.8	30	79	3	145	31	3	13	51	1.57
4012133--4012351	87	2.5	86	74	10	194	32	3	12	50	1.58
4025016--4025068	17	3.1	17	83	0	70	39	7	13	39	1.73
4025016--4025085	34	2.1	34	83	5	88	40	10	11	38	1.75
4033256--4033306	21	2.4	22	70	9	52	66	5	7	19	1.38
4034839--4035023	98	1.9	98	89	0	289	18	23	24	32	1.97
4035091--4035416	109	3.0	109	92	0	546	21	19	26	33	1.97
4045652--4045720	29	2.4	30	83	9	81	71	2	5	20	1.20
4051043--4051072	2	15.0	2	100	0	60	50	0	0	50	1.00
4051511--4051649	34	4.1	34	85	0	170	25	21	19	33	1.97
4051515--4051674	68	2.4	68	81	0	194	26	16	21	36	1.94
4054179--4054205	2	13.5	2	100	0	54	51	0	0	48	1.00
4056500--4056621	47	2.7	45	80	8	129	22	19	9	48	1.77
4057078--4057474	46	8.6	46	89	1	569	21	23	11	43	1.85
4057085--4057474	139	2.8	139	92	0	609	21	23	12	43	1.86
4057078--4057474	93	4.3	92	90	0	578	21	23	11	43	1.85
4057388--4057546	73	2.2	72	82	1	192	22	22	11	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4057091--4057520	139	3.1	134	84	7	456	22	23	11	43	1.85
4057465--4057552	46	1.9	46	92	0	149	23	23	9	43	1.82
4057981--4058164	96	2.0	95	81	5	214	23	23	13	39	1.90
4062157--4062270	46	2.5	47	80	11	137	26	21	7	44	1.79
4062683--4062717	12	2.8	12	86	4	52	14	14	0	71	1.15
4062750--4062914	20	7.3	20	66	22	78	19	25	12	43	1.85
4062732--4062940	46	4.5	46	87	0	283	20	22	11	44	1.84
4062764--4062895	26	5.5	26	67	20	99	18	25	12	43	1.85
4062938--4062998	25	2.4	26	88	2	88	21	24	8	45	1.78
4067935--4067969	2	17.5	2	93	0	61	54	0	0	45	0.99
4068134--4068177	13	3.4	13	80	0	52	36	13	13	36	1.85
4069085--4069211	24	5.3	23	83	7	85	42	17	11	29	1.83
4069102--4069216	24	4.8	24	87	4	151	40	17	13	28	1.87
4073896--4074031	35	3.9	35	95	0	236	30	26	33	9	1.88
4074119--4074243	24	5.2	23	78	10	74	44	15	13	27	1.84
4074150--4074250	48	2.1	48	81	7	116	44	16	13	24	1.85
4079089--4079203	24	4.8	24	88	4	151	40	18	14	26	1.89
4080191--4080243	26	2.0	26	82	7	63	26	22	18	32	1.97
4088028--4088097	12	5.8	12	76	6	70	52	18	14	14	1.74
4088026--4088120	24	4.0	24	80	2	102	49	17	13	18	1.79
4090467--4090497	13	2.4	13	94	0	53	19	19	45	16	1.86
4090474--4090524	18	2.8	18	90	0	75	19	19	45	15	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4090481--4090532	18	2.9	18	91	0	77	21	21	40	17	1.91
4092600--4092680	24	3.4	24	84	3	101	45	17	17	19	1.85
4092600--4092693	48	2.0	48	82	4	118	44	17	19	19	1.87
4092600--4092680	12	6.8	12	69	10	67	45	17	17	19	1.85
4092600--4092693	24	3.9	24	81	5	100	44	17	19	19	1.87
4098190--4098250	16	3.7	17	77	18	58	68	1	1	27	1.08
4098950--4099134	50	3.7	51	87	5	261	22	11	17	49	1.78
4098950--4099134	101	1.8	101	88	4	284	22	11	17	49	1.78
4100115--4100335	76	3.0	75	66	22	198	31	13	4	50	1.61
4101259--4101296	3	13.0	3	88	5	60	34	0	0	65	0.93
4101244--4101296	20	2.7	20	85	2	72	33	0	0	66	0.92
4101262--4101295	17	2.0	17	94	0	59	32	0	0	67	0.91
4102609--4102700	28	3.2	28	76	17	75	17	15	6	60	1.55
4106210--4106248	20	2.0	20	89	0	60	30	15	15	38	1.88
4106824--4106871	11	4.1	11	80	15	51	77	4	14	4	1.08
4107725--4107790	24	2.9	21	73	18	60	33	10	4	51	1.57
4108640--4108741	36	2.8	34	79	8	114	35	17	10	36	1.85
4108845--4108928	30	2.8	29	78	1	69	26	23	9	40	1.85
4109189--4109328	64	2.2	64	83	3	174	32	9	14	44	1.77
4109706--4109822	43	2.8	40	71	7	101	23	32	18	25	1.97
4109989--4110026	3	13.0	3	88	5	60	34	0	0	65	0.93
4109974--4110026	20	2.7	20	85	2	72	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4109992--4110025	17	2.0	17	94	0	59	32	0	0	67	0.91
4117254--4117307	15	3.3	15	75	22	54	40	18	3	37	1.69
4117230--4117330	35	2.8	35	82	5	123	35	17	10	35	1.85
4117434--4117517	30	2.8	29	78	1	69	26	23	9	40	1.85
4117539--4117599	32	1.9	31	83	9	79	31	14	13	40	1.84
4117777--4117916	64	2.2	64	85	3	183	32	10	14	43	1.78
4117796--4117925	66	2.0	64	82	7	156	30	10	13	44	1.78
4118580--4118617	3	13.0	3	88	5	60	34	0	0	65	0.93
4118565--4118617	20	2.7	20	85	2	72	33	0	0	66	0.92
4118583--4118616	17	2.0	17	94	0	59	32	0	0	67	0.91

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