genome.fa.s8242.2.7.7.80.10.50.1000.20.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  20  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)
4119894--4119949	27	2.0	28	83	10	71	17	16	7	58	1.59
4120249--4120300	25	2.1	26	86	13	74	25	3	9	61	1.44
4126300--4126343	22	2.0	22	82	8	54	22	0	4	72	1.02
4127661--4128301	337	1.9	339	89	1	1000	24	19	22	33	1.97
4137032--4137056	2	12.5	2	100	0	50	52	0	0	48	1.00
4137179--4137212	17	2.0	17	88	0	50	41	0	0	58	0.98
4139078--4139272	76	2.6	75	92	2	327	27	1	11	60	1.40
4139935--4139981	8	5.8	8	87	12	69	25	2	0	72	0.96
4139933--4140017	16	4.7	20	75	24	66	23	5	0	70	1.09
4139941--4139980	3	13.7	3	85	15	57	27	0	0	72	0.85
4140477--4140627	78	1.9	78	98	0	293	28	27	10	33	1.90
4145307--4145352	5	8.8	5	81	9	56	15	4	2	78	1.01
4145294--4145355	22	2.8	22	78	7	63	16	8	3	72	1.21
4145306--4145353	11	4.5	11	84	5	62	14	4	2	79	0.98
4145380--4145409	5	6.0	5	92	0	51	23	0	0	76	0.78
4147377--4147659	76	3.7	75	91	3	444	28	1	10	59	1.41
4147449--4147580	44	3.3	42	65	24	113	26	2	11	59	1.43
4147377--4147656	151	1.8	152	91	3	467	28	1	10	58	1.41
4148310--4148342	16	2.1	15	94	5	57	27	0	0	72	0.85
4148311--4148377	19	3.5	19	73	16	66	26	5	0	67	1.14
4148311--4148345	3	11.7	3	88	11	54	28	0	0	71	0.86
4148982--4149020	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4150522--4150569	2	24.0	2	100	0	96	50	0	0	50	1.00
4163296--4163731	110	4.0	110	78	5	380	34	19	18	27	1.95
4163288--4163614	165	2.0	165	83	2	415	34	19	18	28	1.95
4163305--4163720	165	2.5	164	80	3	404	34	19	18	27	1.95
4163298--4163760	55	8.4	55	76	4	322	33	19	19	28	1.96
4165735--4165773	4	10.0	4	88	5	62	25	0	0	74	0.82
4171050--4171253	112	1.8	112	88	0	309	25	19	21	33	1.97
4172156--4172184	8	3.6	8	100	0	58	0	10	0	89	0.48
4181019--4181172	77	2.0	77	100	0	308	29	22	23	24	1.99
4181509--4181553	3	15.0	3	81	9	56	62	0	4	33	1.15
4187854--4187909	27	2.1	27	100	0	112	32	0	32	35	1.58
4188562--4188620	28	2.1	28	84	12	77	47	13	1	37	1.53
4188675--4188704	15	2.0	15	93	0	51	63	0	0	36	0.95
4189728--4189858	45	2.7	50	82	13	191	35	5	15	43	1.69
4192259--4192333	33	2.3	33	93	2	125	46	2	33	17	1.62
4192602--4192633	9	3.6	9	95	0	55	25	9	53	12	1.68
4192615--4192667	21	2.5	20	79	8	61	22	15	45	16	1.85
4194119--4194617	246	2.0	252	97	2	956	22	20	22	34	1.96
4199484--4199675	96	2.0	96	100	0	384	33	32	11	22	1.90
4199720--4199749	11	2.7	11	94	0	51	46	40	10	3	1.54
4202809--4202850	21	2.0	20	86	4	57	35	21	16	26	1.94
4204785--4204861	16	4.7	16	69	23	52	71	0	10	18	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4204792--4204859	25	2.7	25	78	13	70	72	0	10	17	1.12
4204859--4204885	2	13.5	2	100	0	54	51	0	0	48	1.00
4204915--4204992	18	4.2	19	70	20	58	73	2	1	23	1.03
4205152--4205233	19	4.0	19	69	17	56	62	2	4	30	1.29
4205695--4205798	37	2.8	37	82	5	120	32	14	12	40	1.83
4206029--4206077	22	2.2	22	100	0	98	0	36	16	46	1.47
4206549--4207607	106	10.0	106	90	1	1506	23	17	24	34	1.96
4206549--4207607	317	3.3	318	89	2	1571	23	17	24	34	1.96
4206548--4207607	423	2.5	419	89	2	1581	23	17	24	34	1.96
4208134--4208446	155	2.0	157	98	1	612	35	11	12	40	1.78
4208586--4208662	22	3.5	22	89	0	118	22	12	25	38	1.90
4209058--4209396	172	2.0	173	92	4	576	25	17	20	37	1.93
4212936--4212972	19	1.9	19	89	10	58	67	0	24	8	1.17
4214039--4214114	29	2.6	32	76	18	92	75	0	6	18	1.02
4214041--4214122	19	4.3	19	73	13	69	71	0	6	21	1.07
4214120--4214148	2	14.5	2	100	0	58	51	0	0	48	1.00
4214158--4214219	18	3.6	18	76	16	60	62	1	6	29	1.29
4214475--4214523	23	2.1	24	81	11	57	57	0	8	34	1.29
4214980--4215084	37	2.8	37	88	0	156	29	15	15	40	1.88
4224295--4224417	57	2.2	57	87	0	174	21	28	14	35	1.93
4225987--4226042	23	2.4	23	84	3	67	23	10	16	50	1.76
4226503--4226563	23	2.7	23	87	5	79	31	11	14	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4236959--4237051	21	4.5	21	74	5	66	30	17	20	32	1.95
4239274--4239318	20	2.4	19	82	10	56	33	0	11	55	1.35
4239615--4239658	6	7.2	6	86	2	61	54	18	0	27	1.44
4239612--4239658	12	3.8	12	94	2	76	57	17	0	25	1.40
4247969--4248136	35	4.8	35	79	2	158	30	14	19	35	1.91
4247965--4248160	70	2.8	70	85	3	252	31	14	18	35	1.91
4252400--4252430	6	5.2	6	92	0	53	48	0	3	48	1.17
4252663--4252709	18	2.4	20	89	10	71	12	4	10	72	1.25
4252975--4253016	17	2.5	17	100	0	84	33	4	35	26	1.77
4255249--4255280	5	6.4	5	92	0	55	81	0	15	3	0.82
4257556--4258226	335	2.0	334	94	0	1180	38	17	19	25	1.93
4261175--4261216	21	2.1	20	91	8	68	52	4	9	33	1.55
4263271--4263313	23	1.9	21	81	13	50	34	16	16	32	1.91
4264545--4264595	24	2.1	24	81	0	57	13	9	13	62	1.54
4265267--4265301	18	1.9	18	94	0	61	45	5	14	34	1.68
4274078--4274113	18	2.0	18	88	0	54	41	2	5	50	1.40
4275884--4276240	178	2.0	179	99	0	707	26	19	16	37	1.93
4278345--4278468	65	1.9	65	86	6	180	33	16	19	29	1.94
4280239--4280268	16	1.9	16	93	6	53	33	10	3	53	1.51
4281673--4281902	116	2.0	115	91	0	370	25	23	10	40	1.87
4282018--4282072	23	2.3	24	81	6	67	60	10	18	10	1.59
4286505--4286547	13	3.3	13	87	6	61	44	9	11	34	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4290202--4290363	81	2.0	81	100	0	324	27	16	14	41	1.87
4290626--4290664	20	2.0	20	84	0	51	30	17	10	41	1.83
4291256--4291424	84	2.0	84	100	0	338	24	23	17	33	1.96
4292788--4292956	65	2.6	65	86	7	211	32	17	21	28	1.96
4305353--4305385	12	2.8	12	90	4	50	42	0	30	27	1.56
4305791--4305832	22	1.9	22	95	0	75	11	21	19	47	1.81
4306461--4306502	23	2.0	21	81	13	50	45	0	7	47	1.30
4332399--4332445	21	2.1	23	84	7	62	4	12	2	80	0.94
4333463--4333503	19	2.2	19	100	0	82	14	14	39	31	1.87
4333463--4333509	19	2.5	19	92	0	67	14	14	38	31	1.87
4336829--4337004	90	2.0	88	92	2	289	37	10	6	44	1.66
4342145--4342240	44	2.2	44	88	5	140	39	8	16	35	1.79
4344247--4344291	23	2.0	23	81	0	54	35	40	2	22	1.66
4344580--4344615	17	2.1	18	94	5	65	80	5	8	5	1.01
4344884--4344917	18	1.9	17	88	5	50	8	26	0	64	1.22
4353659--4353705	16	2.9	16	72	12	51	21	19	0	59	1.38
4373175--4373209	17	2.0	18	94	5	63	74	11	8	5	1.22
4375233--4375336	43	2.3	45	82	11	115	29	1	15	52	1.53
4379913--4380208	152	1.9	152	93	1	513	14	17	13	54	1.72
4379919--4380254	152	2.2	149	87	5	460	14	18	14	52	1.75
4388878--4389033	78	2.0	79	97	2	296	31	24	20	23	1.98
4388958--4389287	178	1.9	176	98	1	642	33	20	21	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4395165--4395201	15	2.5	15	100	0	74	89	0	10	0	0.49
4397700--4397748	23	2.1	23	100	0	98	26	16	22	34	1.95
4397922--4398077	77	2.0	77	100	0	312	33	15	23	27	1.95
4403410--4403451	21	2.0	21	100	0	84	19	28	33	19	1.96
4409843--4409908	30	2.2	30	97	0	123	30	24	7	37	1.83
4409913--4409953	21	2.0	21	85	4	57	26	31	9	31	1.89
4417794--4417931	68	2.0	68	100	0	276	34	15	18	31	1.93
4424504--4424549	20	2.3	20	88	3	67	36	10	4	47	1.58
4425178--4425215	17	2.3	16	86	13	51	68	5	15	10	1.36
4431057--4431117	26	2.3	27	85	5	88	63	11	13	11	1.51

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