genome.fa.s7984.2.7.7.80.10.50.1000.22.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  22  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)
4304146--4304234	35	2.5	35	78	10	101	25	24	16	32	1.96
4312390--4312439	18	2.8	18	100	0	100	30	4	16	50	1.63
4313740--4313840	35	2.9	35	87	0	130	23	14	29	31	1.95
4313748--4313811	20	3.5	20	67	20	57	23	12	29	34	1.92
4317441--4317487	7	6.4	7	84	15	60	72	0	4	23	1.02
4317441--4317494	24	2.2	24	87	6	74	70	0	5	24	1.08
4323036--4323133	40	2.5	39	88	3	142	25	19	27	27	1.99
4331662--4331705	22	2.0	23	90	4	72	36	4	13	45	1.64
4331852--4331965	40	2.8	39	89	5	174	21	20	27	30	1.98
4335582--4335614	17	1.9	18	88	11	52	33	3	9	54	1.47
4343282--4343376	45	2.1	45	90	0	145	28	34	20	16	1.94
4343418--4343446	15	1.9	15	100	0	58	34	20	17	27	1.95
4346618--4346644	3	9.0	3	100	0	54	33	0	33	33	1.58
4356185--4356235	21	2.4	21	93	0	84	37	23	23	15	1.93
4359143--4359198	11	4.9	11	81	16	53	82	0	17	0	0.68
4359142--4359197	5	11.4	5	85	11	80	82	0	17	0	0.68
4359142--4359197	16	3.4	16	90	7	78	82	0	17	0	0.68
4359948--4360506	123	4.5	123	91	0	877	41	16	17	24	1.89
4360923--4361088	45	3.7	45	85	0	206	27	36	15	20	1.92
4360921--4361088	90	1.9	90	84	2	230	27	36	15	20	1.93
4362927--4362957	2	15.5	2	100	0	62	51	0	0	48	1.00
4363918--4363993	38	2.0	39	84	7	102	30	14	11	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4364374--4364430	16	3.4	17	70	7	53	33	3	0	63	1.12
4364374--4364432	17	3.6	16	73	8	57	33	3	0	62	1.12
4364812--4365284	181	2.6	182	89	0	687	42	13	16	27	1.86
4365205--4365251	20	2.4	19	82	10	67	53	10	17	19	1.72
4365214--4365256	20	2.3	19	88	11	63	51	11	16	20	1.75
4367481--4367545	21	3.1	21	93	0	103	41	10	30	16	1.83
4367579--4367644	33	2.0	33	90	0	105	28	0	48	22	1.51
4368840--4368872	4	8.2	4	100	0	66	24	0	27	48	1.51
4369614--4370590	200	4.9	200	94	0	1699	36	14	17	31	1.91
4372053--4372146	6	15.7	6	81	4	64	38	7	31	22	1.82
4372068--4372150	3	27.7	3	77	0	85	36	7	32	24	1.83
4373362--4374684	183	7.1	183	92	4	2161	36	14	16	32	1.89
4373956--4374010	21	2.6	21	94	0	92	41	14	16	27	1.87
4373406--4374684	570	2.3	565	93	3	2173	36	14	16	32	1.89
4377514--4377575	22	2.7	23	87	5	99	33	6	22	37	1.80
4377983--4378054	23	3.2	23	90	2	110	36	5	19	38	1.75
4377175--4378925	477	3.7	483	93	5	2968	41	7	10	39	1.69
4378457--4378521	23	2.8	23	90	0	103	38	3	21	36	1.69
4378458--4378530	23	3.2	22	83	11	85	35	4	20	39	1.72
4378999--4379057	23	2.6	23	100	0	118	38	18	10	32	1.84
4379202--4379238	19	1.9	19	100	0	74	24	16	16	43	1.87
4379632--4379719	35	2.6	32	76	16	86	39	1	11	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4379694--4379749	24	2.4	24	90	3	87	42	1	8	46	1.45
4379717--4380049	36	8.9	36	82	10	377	43	1	6	47	1.39
4379717--4380049	75	4.4	74	86	7	408	43	1	6	47	1.39
4379767--4380049	75	3.8	74	90	4	412	43	1	7	48	1.37
4380060--4380120	4	15.0	4	90	10	97	24	1	0	73	0.92
4380060--4380120	29	2.1	29	88	11	51	24	1	0	73	0.92
4380305--4380334	16	1.9	15	93	6	51	20	40	26	13	1.89
4381206--4381264	13	4.7	12	83	6	64	18	3	3	74	1.10
4382867--4382905	17	2.3	17	81	0	51	35	0	0	64	0.94
4384311--4384366	20	2.9	19	75	19	62	66	1	8	23	1.30
4384425--4384501	22	3.6	21	75	16	61	71	1	5	22	1.13
4384723--4384757	2	17.5	2	100	0	70	51	0	0	48	1.00
4385245--4385346	37	2.8	37	89	0	141	30	14	14	40	1.86
4386099--4387364	106	12.0	106	90	2	1892	22	17	25	34	1.96
4388322--4388376	22	2.5	22	100	0	110	23	12	27	36	1.91
4388980--4389035	7	7.6	7	80	11	58	0	7	7	85	0.73
4388980--4389035	15	3.7	15	81	6	60	0	7	7	85	0.73
4388970--4389047	30	2.6	30	79	4	95	0	12	8	78	0.97
4393459--4393591	22	6.0	22	70	14	62	66	0	4	27	1.16
4393473--4393550	22	3.3	24	78	8	79	66	0	3	29	1.09
4393792--4393838	23	2.0	23	88	8	69	72	0	0	27	0.85
4394257--4394349	37	2.5	37	82	0	105	32	10	12	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4402446--4402473	2	14.0	2	100	0	56	50	0	0	50	1.00
4403788--4403868	29	2.8	29	96	0	144	50	17	8	23	1.73
4403788--4403899	29	3.9	29	85	2	136	50	15	8	25	1.72
4403788--4403897	58	1.9	58	84	3	150	50	15	9	24	1.72
4404112--4404148	19	1.9	19	94	0	65	32	29	16	21	1.95
4404174--4404248	20	3.8	20	75	7	80	28	22	20	29	1.98
4404391--4404463	22	3.3	22	96	0	128	21	43	15	19	1.87
4404869--4404917	20	2.5	20	89	0	71	18	18	26	36	1.94
4404885--4404940	20	2.8	20	88	0	76	10	14	23	51	1.73
4406930--4406974	19	2.4	19	81	3	56	13	13	26	46	1.80
4406945--4407019	33	2.3	33	83	0	87	12	18	22	46	1.82
4407026--4407069	20	2.2	20	91	0	70	13	11	22	52	1.72
4407555--4407667	21	5.4	21	69	8	68	23	33	17	24	1.96
4407546--4407667	42	2.9	42	80	0	118	23	33	17	25	1.96
4409188--4409260	20	3.7	20	83	7	78	43	23	17	15	1.87
4409304--4409422	20	6.2	20	77	11	97	22	21	23	32	1.98
4409270--4409406	34	3.8	33	73	17	105	21	21	21	35	1.96
4409264--4409422	74	2.1	74	85	4	214	22	20	22	34	1.97
4409385--4409670	140	2.0	143	93	2	497	41	15	13	29	1.86
4412950--4412986	19	1.9	19	88	0	56	21	13	29	35	1.92
4413426--4413492	21	3.3	21	85	6	86	38	17	29	13	1.88
4422740--4422783	21	2.1	21	95	0	79	31	27	22	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4423378--4423408	16	1.9	16	100	0	62	35	19	12	32	1.90
4432087--4432284	106	1.9	106	89	0	306	35	13	16	35	1.87
4434110--4434159	21	2.4	22	81	18	63	20	8	26	46	1.78
4435518--4435545	12	2.3	12	100	0	56	50	35	7	7	1.57
4443016--4443053	20	1.9	20	88	0	58	26	15	21	36	1.93
4448701--4448738	20	1.9	20	88	0	58	28	18	18	34	1.95
4451534--4451849	64	5.0	62	69	17	213	39	5	9	45	1.60
4451466--4451849	190	2.0	192	86	3	542	39	5	9	46	1.59
4453410--4453468	28	2.1	29	81	9	68	28	8	3	59	1.43
4453886--4453950	30	2.2	30	78	8	71	41	29	4	24	1.75
4454229--4454292	29	2.2	29	91	5	103	35	9	9	45	1.69
4454626--4454661	16	2.2	16	100	0	72	47	0	5	47	1.25
4455373--4455585	48	4.4	48	75	13	179	41	2	6	50	1.40
4455314--4455519	23	8.9	23	76	14	156	42	1	6	49	1.40
4455519--4455558	21	1.9	21	89	0	62	47	2	5	45	1.38
4455519--4455557	19	2.0	21	85	10	55	48	2	5	43	1.38
4455529--4455591	26	2.4	26	86	7	83	47	0	3	49	1.17
4461770--4461835	34	1.9	34	93	0	114	24	0	18	57	1.40
4461877--4461933	3	18.7	3	85	10	80	63	0	0	36	0.95
4462222--4462342	60	2.0	60	95	0	215	33	2	14	49	1.56
4462239--4462339	21	5.0	20	65	14	64	32	1	14	50	1.55
4462907--4463111	111	1.8	111	95	0	374	37	4	11	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4468780--4468902	50	2.5	49	80	7	142	21	27	35	14	1.93
4469470--4469521	15	3.2	17	72	22	58	36	21	0	42	1.53
4471874--4471920	16	3.1	15	77	22	53	42	2	6	48	1.40
4471862--4471920	30	2.0	30	93	0	100	40	1	6	50	1.39
4471862--4471914	14	3.6	14	79	18	63	39	1	5	52	1.36
4472626--4472741	53	2.2	53	80	11	132	44	9	3	42	1.53
4475518--4475586	31	2.2	31	94	0	120	20	20	21	37	1.94
4476058--4476087	2	15.0	2	100	0	60	50	0	0	50	1.00
4476661--4476818	64	2.5	64	81	8	162	21	22	21	34	1.97
4478993--4479094	30	3.4	30	97	0	195	42	1	25	30	1.66

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