genome.fa.s8724.2.7.7.80.10.50.1000.21.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  21  of  23  ( 2733 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)
4728691--4729054	146	2.5	146	88	5	517	35	15	13	35	1.86
4728976--4729761	195	4.1	195	83	8	977	39	12	13	33	1.83
4730262--4730301	17	2.4	17	95	0	71	22	30	10	37	1.87
4732708--4733155	198	2.3	189	83	8	523	39	11	13	35	1.81
4733140--4733704	280	2.0	282	91	7	932	43	12	12	31	1.79
4733416--4733821	129	3.2	129	83	4	516	42	12	13	32	1.81
4733826--4734424	222	2.7	224	82	3	696	33	15	13	38	1.85
4734686--4734754	2	35.5	2	92	5	115	50	0	1	47	1.09
4734746--4734783	18	2.1	19	85	5	51	60	0	2	36	1.11
4736513--4736585	5	15.4	5	79	11	66	75	4	1	19	1.04
4736508--4736601	4	22.2	4	73	23	61	75	3	1	20	1.00
4737326--4737427	34	2.9	36	84	11	147	30	12	13	43	1.82
4737975--4738700	106	7.0	106	86	4	952	22	17	25	34	1.96
4737975--4738628	317	2.1	309	88	2	941	22	17	25	33	1.96
4739456--4739494	19	2.0	20	90	5	62	0	15	5	79	0.90
4739557--4739588	12	2.6	12	95	5	55	0	0	15	84	0.63
4739557--4739590	15	2.3	15	95	5	61	0	0	14	85	0.60
4749936--4750025	9	10.0	9	70	18	55	73	5	1	20	1.10
4749936--4749967	14	2.4	13	94	5	55	81	0	0	18	0.70
4749983--4750025	20	2.2	20	87	8	61	79	0	2	18	0.85
4750721--4750858	37	3.8	36	82	6	154	30	13	13	42	1.82
4750755--4750855	34	2.9	35	88	8	143	28	13	12	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4751096--4751131	17	2.1	17	89	0	54	69	2	0	27	1.02
4767177--4767369	18	10.6	18	69	20	73	72	2	9	16	1.22
4767249--4767321	26	2.8	25	85	6	83	75	0	6	17	1.02
4767187--4767313	9	13.9	9	69	17	66	72	2	11	13	1.22
4767318--4767368	17	2.8	18	82	5	59	70	3	5	19	1.24
4767247--4767361	21	5.4	21	71	19	62	73	0	7	18	1.13
4767409--4767453	18	2.3	20	81	11	58	68	2	11	17	1.29
4767488--4767529	3	14.0	3	100	0	84	66	0	0	33	0.92
4768751--4768799	20	2.6	19	81	12	57	53	0	2	44	1.12
4768751--4768801	17	2.9	17	80	11	59	50	0	3	45	1.20
4769343--4769946	84	7.2	84	85	0	742	24	18	23	33	1.97
4770042--4770510	124	3.8	124	88	2	674	27	17	23	31	1.97
4771674--4771921	95	2.6	95	83	7	277	31	17	14	35	1.90
4774061--4774354	147	2.0	149	97	1	556	50	8	8	32	1.64
4774780--4774851	18	3.6	19	78	12	65	75	1	9	13	1.12
4774805--4775065	17	16.5	15	66	22	58	69	1	9	19	1.25
4774800--4774839	21	2.0	20	85	5	53	75	0	7	17	1.03
4774797--4774869	26	2.8	25	81	8	76	73	0	8	17	1.06
4774900--4774953	21	2.6	19	75	16	54	70	3	11	14	1.29
4774951--4775000	26	1.9	26	84	15	68	74	0	12	14	1.09
4776236--4776293	20	3.0	20	85	7	75	51	0	3	44	1.18
4780728--4780778	20	2.5	20	83	0	66	35	17	15	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4786491--4786542	24	2.1	25	82	7	61	36	38	7	17	1.78
4796240--4796589	58	6.0	58	93	0	601	40	19	9	31	1.83
4797743--4797798	13	4.3	13	86	0	67	28	19	14	37	1.91
4797734--4797798	26	2.5	26	82	0	85	29	20	15	35	1.93
4804777--4804883	52	2.0	54	89	3	164	19	21	15	42	1.88
4804991--4805417	58	7.4	58	91	0	667	40	19	9	30	1.82
4807574--4807613	22	1.9	20	90	10	62	30	0	0	70	0.88
4820121--4820183	31	2.0	31	96	0	117	33	20	19	26	1.96
4837690--4837744	21	2.6	21	97	0	101	20	18	30	30	1.96
4842454--4842482	7	4.1	7	100	0	58	27	0	72	0	0.85
4843920--4843975	20	2.7	21	80	5	69	25	19	26	28	1.99
4846984--4847024	21	2.0	20	86	9	57	26	21	19	31	1.97
4862407--4862515	36	3.1	36	90	1	166	40	17	24	17	1.91
4863512--4863545	17	2.1	16	88	5	50	76	0	8	14	1.01
4873747--4873780	17	2.1	16	94	5	59	79	0	5	14	0.91
4875783--4875831	14	3.4	14	77	2	53	28	0	28	42	1.56
4875828--4875935	27	3.9	27	71	9	67	25	0	34	38	1.63
4877118--4877184	33	2.0	33	100	0	134	59	11	13	14	1.61
4883017--4883055	20	2.0	20	84	0	51	66	2	5	25	1.25
4888197--4888240	21	2.1	21	83	8	54	61	0	2	36	1.09
4890973--4891012	11	3.8	11	81	18	50	5	27	0	67	1.11
4895359--4895413	20	2.8	20	83	8	67	23	1	29	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4895360--4895420	7	8.9	7	80	7	63	24	1	27	45	1.62
4896414--4896492	24	3.5	22	72	19	65	31	13	18	35	1.91
4897265--4897320	17	3.4	17	76	14	62	57	28	0	14	1.38
4907097--4907138	19	2.2	19	83	8	50	23	4	4	66	1.30
4907737--4907786	22	2.4	20	83	6	64	74	2	0	24	0.93
4912797--4912845	25	2.0	25	88	8	73	34	22	18	24	1.96
4917364--4917400	19	1.9	19	88	0	56	37	0	16	45	1.47
4918015--4918163	66	2.3	66	82	2	165	29	12	25	32	1.93
4922491--4922517	2	13.5	2	100	0	54	51	0	0	48	1.00
4931961--4932011	18	2.8	18	84	0	75	29	21	13	35	1.92
4939050--4939173	61	2.0	61	100	0	248	24	21	28	25	1.99
4942899--4942946	25	1.9	26	84	16	66	64	4	6	25	1.35
4945426--4945475	18	2.8	17	82	11	55	22	20	30	28	1.98
4952654--4952688	10	3.5	10	85	14	54	34	25	0	40	1.56
4952657--4952695	10	3.6	12	80	19	50	28	25	0	46	1.53
4952815--4953146	111	3.0	111	95	0	603	37	7	10	44	1.67
4954629--4954668	18	2.2	18	100	0	80	25	32	22	20	1.98
4954999--4955030	9	3.6	9	95	0	55	34	25	34	6	1.81
4959740--4959766	6	4.5	6	100	0	54	51	0	18	29	1.46
4964309--4964444	70	1.9	70	93	0	236	33	18	13	34	1.89
4966012--4966087	36	2.1	36	97	0	143	31	10	14	43	1.79
4970986--4971061	36	2.1	36	97	0	143	31	10	14	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4972250--4972317	27	2.5	27	97	0	127	63	0	25	11	1.28
4973200--4973255	20	2.8	21	72	8	62	50	0	0	50	1.00
4973212--4973251	17	2.4	17	82	0	53	50	0	0	50	1.00
4973242--4973282	21	1.9	22	90	5	66	39	0	0	60	0.96
4973381--4973438	24	2.4	25	83	8	68	32	0	5	62	1.18
4974986--4975085	42	2.4	42	81	0	110	21	35	19	25	1.96
4975063--4975114	21	2.5	21	84	12	79	17	34	26	21	1.95
4975636--4975742	34	3.1	34	87	0	169	55	3	2	38	1.33
4975993--4976068	30	2.5	30	82	4	100	35	10	34	19	1.86
4976335--4976372	19	2.0	19	94	0	67	18	10	39	31	1.85
4976634--4977143	127	4.0	127	92	1	858	33	21	23	21	1.97
4978761--4979038	139	2.0	139	97	0	529	25	20	19	35	1.95
4981180--4981307	51	2.5	51	82	6	143	15	32	27	24	1.95
4984352--4984511	65	2.5	65	88	1	232	28	16	25	30	1.96
4984462--4984508	19	2.5	19	83	10	62	25	17	31	25	1.97
4984352--4984558	65	3.2	62	80	11	211	28	16	24	30	1.97
4984728--4984767	20	2.0	21	85	14	57	45	7	5	42	1.54
4985004--4985047	2	22.5	2	95	4	81	50	0	0	50	1.00
4989829--4989868	21	1.9	21	85	10	55	35	10	2	52	1.48
4991780--4991957	64	2.8	61	79	11	178	28	17	25	28	1.98
4991908--4991954	19	2.5	19	83	10	62	27	17	29	25	1.97
4991799--4992004	65	3.2	62	84	5	225	28	17	24	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4992174--4992213	20	2.0	21	85	14	57	45	7	5	42	1.54
4993532--4993618	35	2.5	34	78	12	88	56	10	6	26	1.58
4994177--4994215	18	2.2	18	90	0	60	28	20	25	25	1.99
4995888--4995921	17	1.9	18	94	5	61	61	2	5	29	1.34
5001581--5001619	19	2.0	21	85	14	57	33	0	2	64	1.08
5001841--5001880	16	2.5	16	91	0	71	35	27	2	35	1.71
5006594--5006643	21	2.4	21	82	0	73	28	18	16	38	1.91
5006635--5006704	20	3.5	20	82	5	81	37	20	5	37	1.76
5008037--5008084	19	2.5	20	86	3	62	31	14	6	47	1.69
5009277--5009345	21	3.3	21	97	0	129	27	18	15	37	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23