genome.fa.s2890.2.7.7.80.10.50.1000.19.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  19  of  21  ( 2516 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)
4419086--4419147	15	4.3	14	79	18	65	0	19	1	79	0.82
4419095--4419147	24	2.3	24	90	6	83	0	20	1	77	0.87
4419185--4419230	15	3.0	16	78	9	51	0	19	2	78	0.86
4419203--4419228	7	3.7	7	100	0	52	0	23	0	76	0.78
4419185--4419230	7	5.9	8	82	7	51	0	19	2	78	0.86
4426686--4426735	20	2.5	20	100	0	100	30	20	20	30	1.97
4426699--4426745	20	2.3	20	85	0	58	31	27	14	25	1.95
4430108--4430209	31	3.4	31	85	4	129	46	8	18	26	1.78
4439168--4439625	204	2.2	204	92	1	747	22	17	24	36	1.94
4439165--4439617	100	4.4	104	80	7	523	22	17	23	36	1.95
4440693--4440752	16	3.7	15	81	14	75	0	21	1	76	0.87
4440711--4440747	9	3.9	10	86	13	60	0	27	0	72	0.84
4440693--4440752	8	7.5	8	79	17	63	0	21	1	76	0.87
4458242--4458368	66	1.9	67	87	4	186	22	22	21	34	1.97
4458476--4458612	59	2.3	60	81	7	154	18	28	29	23	1.97
4461513--4461558	21	2.2	21	84	7	58	50	0	6	43	1.28
4462326--4462368	12	3.6	12	80	0	50	46	18	13	20	1.83
4463085--4463209	31	4.0	33	79	9	127	31	19	19	30	1.96
4463085--4463208	63	2.0	62	85	4	169	30	19	19	30	1.96
4467502--4467571	32	2.2	33	84	5	97	48	5	11	34	1.63
4468658--4468693	18	1.9	19	88	5	56	8	2	16	72	1.21
4470742--4470835	39	2.4	39	81	0	116	14	26	22	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4477013--4477055	23	1.9	22	90	4	68	13	11	4	69	1.33
4481139--4481242	43	2.3	45	82	11	115	31	0	13	53	1.46
4481640--4481682	23	1.9	22	90	4	68	13	11	4	69	1.33
4485694--4485746	17	3.1	17	83	0	61	43	3	15	37	1.64
4493379--4493516	6	22.5	6	78	16	115	78	0	15	4	0.94
4493379--4493516	52	2.6	51	80	10	127	78	0	15	4	0.94
4493384--4493516	46	2.9	45	83	7	151	78	0	16	4	0.90
4493379--4493496	20	6.2	18	72	17	78	80	0	13	5	0.92
4493379--4493516	40	3.4	40	81	6	127	78	0	15	4	0.94
4496791--4497151	91	4.0	91	89	2	528	36	17	21	24	1.94
4500895--4500935	18	2.3	18	100	0	82	17	26	9	46	1.79
4500905--4500969	20	3.3	20	87	4	89	23	20	6	50	1.70
4500932--4500975	20	2.2	20	87	0	61	27	20	4	47	1.69
4504133--4504223	17	5.3	17	74	7	76	31	27	16	24	1.96
4504073--4504148	11	6.6	11	72	8	53	25	23	26	25	2.00
4504139--4504200	23	2.7	23	80	7	63	32	27	16	24	1.96
4505759--4505795	3	12.3	3	100	0	74	67	0	0	32	0.91
4506549--4506638	21	4.6	21	70	20	79	25	0	22	52	1.47
4506572--4506666	14	6.8	14	73	13	61	25	0	21	53	1.46
4506550--4506672	35	3.5	35	85	0	156	24	0	22	52	1.47
4506578--4506659	7	11.7	7	70	14	53	26	0	18	54	1.43
4506551--4506666	21	5.5	21	74	11	69	25	0	21	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4507917--4507998	31	2.8	27	76	18	83	39	9	7	43	1.65
4510418--4510495	31	2.5	31	87	0	111	24	26	12	35	1.92
4510749--4510812	23	2.7	22	81	11	65	53	0	1	45	1.10
4512590--4512632	12	3.3	12	84	12	50	55	32	2	9	1.44
4515104--4515143	18	2.2	19	86	4	55	50	7	2	40	1.44
4515676--4515729	15	3.6	15	75	9	65	81	3	12	1	0.91
4515668--4515729	30	2.0	31	87	3	90	77	4	14	3	1.06
4516998--4517106	37	3.0	36	79	4	119	29	22	14	33	1.94
4517163--4517347	66	2.7	65	78	11	192	24	18	12	44	1.85
4517285--4517391	50	2.1	50	83	11	130	25	19	12	42	1.86
4517548--4517760	40	4.9	41	69	17	119	28	32	15	23	1.95
4519732--4519771	18	2.2	19	86	4	55	50	7	2	40	1.44
4525855--4525925	33	2.2	33	100	0	142	21	8	30	39	1.83
4529951--4530009	20	3.0	20	87	2	84	27	15	8	49	1.73
4531797--4531827	12	2.6	12	100	0	62	48	41	0	9	1.36
4531849--4531894	20	2.3	20	88	3	67	36	26	0	36	1.57
4534246--4534285	21	1.9	21	89	0	62	40	2	5	52	1.37
4546204--4546257	23	2.3	23	93	0	90	38	18	3	38	1.69
4546875--4546955	42	1.9	42	85	5	110	25	20	22	30	1.98
4547323--4547443	36	3.3	36	72	1	107	32	21	11	34	1.89
4547480--4547523	22	2.0	22	100	0	88	22	18	4	54	1.61
4547657--4548236	123	4.6	122	72	14	473	38	15	20	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4547914--4548303	119	3.2	118	82	5	460	37	15	22	24	1.92
4547903--4548259	119	2.9	123	82	5	465	38	15	21	24	1.92
4548436--4548492	3	19.0	3	92	0	60	33	10	0	56	1.34
4548444--4548492	18	2.7	18	93	0	80	34	12	0	53	1.39
4552665--4552724	23	2.6	23	100	0	120	11	21	20	46	1.82
4553020--4553602	197	2.9	199	93	2	980	40	11	10	37	1.76
4554523--4554611	24	3.7	24	95	1	151	50	16	6	25	1.70
4554572--4554935	197	1.8	199	94	1	642	43	11	9	35	1.73
4557921--4557987	22	3.0	22	86	0	89	40	8	19	31	1.82
4564845--4564890	21	2.2	21	100	0	92	34	17	23	23	1.96
4567354--4567421	22	3.2	21	77	4	57	36	7	19	36	1.79
4570651--4570706	21	2.7	21	75	10	60	30	19	17	32	1.95
4571621--4571721	42	2.4	42	83	0	121	25	3	30	39	1.74
4571899--4571941	21	2.0	21	86	0	59	48	6	18	25	1.73
4575039--4575080	20	2.0	21	82	13	52	45	21	28	4	1.72
4575060--4575116	30	1.9	30	89	7	89	36	24	31	7	1.82
4575353--4575404	24	2.2	24	96	0	95	40	15	17	26	1.89
4577464--4577520	20	3.2	20	68	31	65	36	17	15	29	1.91
4577455--4577520	33	2.0	33	96	0	123	34	19	15	30	1.93
4581182--4581338	42	3.7	42	82	3	156	24	9	30	35	1.87
4583310--4583425	42	2.8	42	75	7	110	24	8	31	35	1.86
4583537--4583705	82	2.1	82	82	4	198	34	14	17	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4583769--4583886	41	2.9	41	82	2	148	27	22	20	29	1.98
4583869--4584024	42	3.7	40	74	10	125	26	12	18	41	1.87
4583869--4584023	44	3.7	43	79	7	149	27	12	18	41	1.86
4590332--4590533	65	3.1	64	75	12	189	27	18	22	31	1.97
4590957--4590983	2	13.5	2	100	0	54	51	0	0	48	1.00
4596975--4597014	21	1.9	21	85	10	55	35	10	2	52	1.48
4598352--4598412	31	2.0	31	96	0	113	31	34	6	27	1.83
4598959--4599118	65	2.5	65	86	5	209	26	18	24	30	1.98
4598959--4599168	65	3.3	62	78	13	194	27	18	23	30	1.97
4599517--4599658	42	3.4	42	74	9	128	28	7	28	35	1.83
4599834--4599873	21	1.9	21	85	10	55	47	5	22	25	1.71
4602305--4602448	42	3.5	41	74	11	141	38	20	15	25	1.92
4602339--4602548	42	5.1	41	70	17	139	35	18	17	29	1.93
4602307--4602492	82	2.2	80	79	9	203	38	18	16	26	1.92
4602472--4602631	41	3.9	41	82	3	171	35	13	18	32	1.90
4611242--4611353	21	5.2	21	72	3	71	41	16	37	3	1.66
4611763--4611999	43	5.5	44	83	4	198	35	25	14	24	1.94
4614442--4614492	20	2.5	20	93	0	84	27	5	5	60	1.43
4614456--4614501	20	2.3	20	88	0	65	26	8	6	58	1.52
4616316--4616368	21	2.5	21	100	0	106	30	13	16	39	1.87
4623597--4623628	16	2.0	16	100	0	64	31	25	25	18	1.98
4623947--4623976	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4623988--4624044	20	2.8	21	71	12	57	54	0	1	43	1.10
4624260--4624316	31	2.0	30	83	13	75	57	3	8	29	1.45
4627487--4627529	21	2.0	21	95	0	77	46	41	4	6	1.51
4630993--4631035	21	2.0	21	95	0	77	46	41	4	6	1.51
4634498--4634540	21	2.0	21	95	0	77	46	41	4	6	1.51
4637552--4637595	21	2.0	21	86	8	61	20	22	36	20	1.95
4637971--4638191	46	4.9	45	88	5	329	31	21	6	40	1.79
4641507--4641556	25	2.0	25	88	0	73	36	8	6	50	1.57
4642245--4642368	51	2.5	50	84	4	142	14	36	27	21	1.93
4642281--4642398	50	2.4	51	81	9	145	16	32	27	22	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21