genome.fa.s8716.2.7.7.80.10.50.1000.16.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

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   

This is table  16  of  24  ( 2813 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)
4048530--4048772	19	13.7	19	77	18	274	45	17	22	13	1.84
4048516--4048695	86	2.1	84	86	12	242	46	18	22	12	1.82
4048530--4048766	105	2.2	106	96	0	440	46	17	22	13	1.83
4048743--4048854	53	2.1	52	85	3	152	18	23	17	40	1.91
4048781--4048868	19	4.8	19	81	14	114	14	22	14	47	1.81
4048959--4048995	14	2.6	14	91	0	65	45	21	0	32	1.52
4050920--4051073	19	8.6	19	75	14	139	45	22	20	11	1.82
4050995--4051051	14	3.7	14	75	20	51	43	22	22	10	1.84
4050938--4051068	33	3.8	33	89	5	181	46	22	21	9	1.80
4050937--4051073	52	2.6	51	74	7	141	45	21	21	10	1.81
4051085--4051143	14	3.9	14	76	20	64	6	16	28	47	1.72
4051069--4051192	33	3.7	33	91	1	185	8	17	27	45	1.78
4051069--4051160	19	5.4	18	72	24	83	7	17	28	46	1.75
4051118--4051174	14	3.7	14	72	20	51	8	22	24	43	1.81
4051290--4051605	93	3.4	93	99	0	614	45	18	13	21	1.85
4053292--4053398	19	5.7	20	77	15	104	46	18	23	11	1.81
4053290--4053354	21	3.1	21	82	4	96	47	15	26	10	1.78
4053415--4053471	14	3.7	14	75	20	60	8	24	22	43	1.81
4053399--4053478	33	2.4	33	95	0	142	8	21	22	47	1.78
4053459--4053532	21	3.5	21	78	10	89	14	18	17	48	1.81
4053612--4053682	33	2.2	33	94	0	124	47	16	23	11	1.79
4054063--4054214	20	7.6	20	85	2	189	20	19	26	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4054062--4054214	60	2.5	60	86	2	209	20	19	26	33	1.96
4055727--4055799	30	2.4	30	97	0	137	36	21	19	21	1.95
4057852--4057908	15	3.9	15	80	11	73	42	5	14	38	1.68
4057846--4057912	30	2.3	29	84	7	91	46	4	14	34	1.65
4057907--4057940	14	2.4	14	90	0	50	35	8	17	38	1.81
4058282--4058319	11	3.5	11	82	10	51	52	0	0	47	1.00
4058282--4058359	20	4.0	20	69	18	58	52	1	0	46	1.08
4058291--4058354	29	2.3	25	82	17	74	51	1	0	46	1.10
4058378--4058549	18	9.8	16	67	24	89	47	1	1	50	1.19
4058361--4058549	54	3.5	54	97	1	346	47	1	1	49	1.20
4058328--4058536	108	2.0	108	89	5	327	48	1	1	48	1.19
4058514--4058563	19	2.5	20	84	15	59	56	0	0	44	0.99
4058518--4058563	10	4.5	10	78	21	51	56	0	0	43	0.99
4058755--4058869	42	2.7	43	90	5	191	47	18	16	17	1.82
4063083--4063124	18	2.3	18	95	0	75	21	38	16	23	1.93
4071443--4071475	17	1.9	17	88	11	50	33	6	33	27	1.81
4089765--4089807	2	22.0	2	95	4	79	51	0	0	48	1.00
4098952--4098998	23	2.0	23	100	0	94	23	34	17	25	1.96
4102040--4102081	15	2.9	14	89	7	57	0	21	2	76	0.90
4102040--4102081	20	2.1	20	86	8	59	0	21	2	76	0.90
4102539--4102599	3	20.7	3	79	3	70	59	0	0	40	0.98
4102892--4103421	116	4.6	113	83	3	659	28	19	14	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4102893--4103422	229	2.3	228	94	1	936	28	19	14	37	1.91
4104104--4104494	83	4.7	83	95	0	667	37	22	13	26	1.91
4116229--4116300	29	2.5	28	76	13	65	68	0	5	26	1.12
4117847--4117879	16	2.1	16	94	0	57	0	21	0	78	0.75
4117847--4117889	16	2.9	14	86	10	50	0	20	2	76	0.89
4118347--4118407	3	20.7	3	79	3	70	59	0	0	40	0.98
4119437--4119472	19	1.9	18	88	5	54	38	0	2	58	1.13
4120494--4120906	142	2.9	143	84	2	573	35	16	11	36	1.85
4121216--4121679	143	3.3	144	86	3	652	36	17	11	34	1.86
4121411--4121476	32	1.9	35	85	11	93	33	19	6	40	1.76
4120194--4121628	722	2.0	722	96	0	2620	34	15	14	35	1.88
4133922--4133961	8	5.1	8	84	6	55	0	30	0	70	0.88
4134996--4135045	23	2.1	24	85	10	68	62	12	16	10	1.55
4134996--4135045	24	2.1	23	85	3	64	62	12	16	10	1.55
4145671--4145720	21	2.3	21	82	3	64	58	0	4	38	1.17
4146656--4146693	19	1.9	20	84	10	51	26	2	0	71	1.00
4146926--4146979	22	2.6	22	77	11	60	42	0	1	55	1.10
4146995--4147097	28	3.5	28	74	17	77	58	0	2	37	1.20
4146995--4147043	24	2.0	25	84	11	66	59	0	0	40	0.98
4146990--4147065	33	2.3	33	86	2	100	60	0	2	36	1.11
4146984--4147124	29	4.7	29	74	12	101	57	0	6	35	1.29
4147278--4147338	22	2.9	21	76	13	70	47	29	0	22	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4147490--4147546	24	2.3	24	81	6	60	52	1	5	40	1.34
4147979--4148062	2	42.0	2	100	0	168	50	0	0	50	1.00
4150940--4151073	72	1.9	72	84	6	182	43	11	8	36	1.72
4154690--4154747	30	1.9	30	86	6	82	29	20	6	43	1.78
4158828--4158883	18	2.8	19	75	15	60	44	17	14	23	1.85
4158930--4159005	20	3.8	20	77	5	73	34	22	19	23	1.97
4159159--4159183	13	1.9	13	100	0	50	8	16	16	60	1.58
4160081--4160133	25	2.1	25	100	0	106	35	18	18	26	1.95
4165751--4165797	20	2.3	21	92	3	78	27	6	34	31	1.82
4165845--4165906	32	1.9	32	83	6	81	32	14	20	32	1.93
4166840--4166935	42	2.3	42	90	0	156	35	19	14	30	1.92
4168079--4168131	18	3.1	18	86	5	74	32	30	11	26	1.91
4173852--4173876	3	8.3	3	100	0	50	0	0	32	68	0.90
4175081--4175146	29	2.3	30	81	5	73	7	9	4	78	1.07
4175227--4175258	15	2.0	17	88	11	50	46	6	15	31	1.71
4176090--4176146	29	1.9	30	82	3	71	54	0	1	43	1.10
4177296--4177344	23	2.1	23	82	14	57	63	0	6	30	1.19
4177274--4177335	23	2.6	23	73	14	54	66	0	8	25	1.19
4178525--4179066	267	2.0	267	99	0	1066	37	16	15	30	1.90
4179544--4179570	2	13.5	2	100	0	54	51	0	0	48	1.00
4183882--4184082	71	2.8	71	100	0	402	30	4	31	32	1.79
4191045--4191084	15	2.7	15	84	0	53	45	2	47	5	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4194607--4194666	31	1.9	31	93	0	102	40	21	6	31	1.79
4195498--4195543	19	2.4	19	92	0	74	28	21	17	32	1.96
4196591--4196623	3	11.0	3	100	0	66	66	0	0	33	0.92
4204697--4204869	57	3.1	56	95	4	305	21	16	39	23	1.92
4206081--4206157	29	2.7	29	89	0	109	33	11	9	45	1.72
4206571--4206902	110	3.0	111	95	0	585	36	7	10	45	1.67
4208437--4208500	31	2.1	31	88	2	94	34	14	28	23	1.93
4217651--4217683	16	1.9	17	88	11	50	36	0	3	60	1.12
4217644--4217685	17	2.4	19	80	15	54	33	0	2	64	1.07
4219749--4219779	3	10.3	3	92	0	53	35	29	32	3	1.73
4219970--4220057	33	2.6	33	83	7	106	20	2	13	63	1.40
4229207--4229241	15	2.3	15	95	0	61	37	5	14	42	1.69
4229486--4229564	37	2.1	36	86	4	104	50	1	0	48	1.08
4230155--4230210	25	2.1	27	87	9	80	51	10	3	33	1.54
4230420--4230501	36	2.3	36	100	0	164	29	20	19	30	1.97
4230598--4231167	183	3.1	182	90	2	860	45	7	2	43	1.47
4244932--4244981	25	2.0	25	96	0	91	50	20	14	16	1.78
4249934--4249958	8	3.1	8	100	0	50	36	52	12	0	1.39
4250473--4250508	17	2.1	18	94	5	65	27	5	2	63	1.30
4252189--4252226	18	2.1	18	95	0	67	26	31	23	18	1.97
4252698--4252769	26	3.0	24	68	27	62	26	6	2	63	1.33
4257247--4257291	6	7.5	6	100	0	90	33	51	15	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4257787--4257816	6	5.0	6	100	0	60	0	16	50	33	1.46
4257956--4257992	19	1.9	19	88	0	56	21	18	24	35	1.96
4258650--4258695	20	2.3	20	85	7	58	78	2	4	15	1.01
4263575--4263641	21	3.3	19	74	13	62	19	19	22	38	1.93
4263591--4263690	21	4.8	20	70	16	69	23	19	22	36	1.95
4263575--4263690	42	2.8	42	85	2	164	23	18	20	37	1.95
4263789--4263825	5	7.6	5	93	3	58	37	24	37	0	1.56
4264566--4264744	42	4.3	42	89	1	263	36	21	18	22	1.95
4264563--4264769	21	10.0	21	70	13	124	35	21	19	23	1.96
4264837--4264891	19	2.9	19	97	0	101	23	20	21	34	1.97

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