genome.fa.s3.2.7.7.80.10.50.1000.13.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: NW_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

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   

This is table  13  of  29  ( 3437 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)
4682460--4682540	21	3.8	21	82	6	92	29	3	14	51	1.60
4682460--4682542	43	1.9	43	87	4	123	30	3	15	50	1.61
4682581--4682635	21	2.6	21	77	11	58	30	3	16	49	1.63
4682587--4682642	21	2.6	22	83	8	71	26	3	16	53	1.59
4682808--4682927	20	6.0	21	75	12	101	38	16	12	32	1.86
4682825--4682927	20	5.2	20	77	6	102	37	16	11	33	1.85
4682810--4682925	39	2.9	40	84	2	153	39	15	12	31	1.85
4682983--4683020	20	1.9	20	94	0	67	34	36	5	23	1.78
4691833--4691888	29	1.9	29	85	7	78	25	10	19	44	1.83
4695966--4695994	14	2.0	15	93	6	51	55	6	13	24	1.63
4697069--4697141	19	3.7	19	75	14	60	61	12	1	24	1.39
4706443--4706476	17	2.1	17	89	10	54	23	0	11	64	1.26
4706647--4706687	17	2.5	17	96	4	75	31	17	24	26	1.97
4707321--4707462	47	3.0	47	97	0	266	9	19	14	57	1.64
4710319--4710347	14	2.1	14	100	0	58	51	41	0	6	1.28
4728079--4728149	31	2.3	31	90	0	106	61	5	12	19	1.50
4729818--4729894	32	2.3	34	80	12	90	70	9	5	15	1.31
4729977--4730027	12	4.7	11	75	20	54	78	19	0	1	0.85
4729977--4730027	19	2.4	19	84	15	57	78	19	0	1	0.85
4729975--4730035	25	2.4	25	81	8	61	77	19	0	3	0.91
4731951--4732027	40	1.9	41	86	2	111	32	9	20	37	1.84
4734179--4734379	81	2.5	81	87	2	278	38	7	13	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4744455--4744495	18	2.3	18	83	4	57	56	0	0	43	0.99
4746285--4746309	13	1.9	13	100	0	50	76	0	0	24	0.80
4753757--4753817	28	2.2	28	88	8	90	27	14	14	42	1.85
4753772--4753824	27	1.9	28	88	3	81	28	16	11	43	1.83
4753686--4753916	126	1.8	126	83	3	304	31	15	11	41	1.83
4763165--4763189	13	1.9	13	100	0	50	0	20	16	64	1.30
4769156--4769298	69	2.0	70	85	5	191	32	18	2	45	1.64
4773089--4773174	32	2.7	33	75	14	99	37	17	6	38	1.77
4790398--4790546	77	1.9	77	90	0	235	42	5	9	42	1.60
4793798--4793827	13	2.3	13	94	0	51	30	16	0	53	1.44
4794169--4794269	50	2.0	50	100	0	202	34	15	21	27	1.94
4795633--4795662	2	15.5	2	93	6	53	50	0	0	50	1.00
4797426--4797455	2	15.0	2	100	0	60	50	0	0	50	1.00
4801396--4801474	39	2.0	39	100	0	158	30	24	10	35	1.88
4803751--4803790	21	2.0	19	85	9	53	55	2	10	32	1.47
4807019--4807069	22	2.3	22	96	0	93	9	21	11	56	1.63
4807019--4807080	22	2.8	22	82	4	63	9	22	11	56	1.63
4808812--4808894	32	2.6	31	82	1	103	30	8	0	61	1.25
4811104--4811151	16	3.0	16	75	9	53	60	0	27	12	1.32
4813524--4813588	34	1.9	34	87	0	94	38	10	10	40	1.75
4815195--4815227	2	16.5	2	100	0	66	48	0	0	51	1.00
4818226--4818250	2	12.5	2	100	0	50	52	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4839230--4839934	355	2.0	353	85	2	966	30	16	17	35	1.92
4851511--4851542	4	7.8	4	96	3	55	78	0	0	21	0.76
4855401--4855455	11	5.0	11	75	16	51	20	0	1	78	0.85
4855399--4855445	12	4.0	12	81	15	62	19	0	0	80	0.70
4858628--4858693	31	2.1	31	100	0	132	46	6	15	31	1.70
4861733--4861785	6	8.8	6	91	0	79	28	50	1	18	1.57
4880554--4880582	2	14.5	2	100	0	58	48	0	0	51	1.00
4884257--4884298	22	1.9	22	85	0	57	28	7	16	47	1.73
4884467--4884572	44	2.4	44	80	0	113	50	16	4	29	1.65
4884500--4884572	22	3.3	22	76	0	65	52	15	4	28	1.61
4884675--4884801	61	2.1	61	82	4	150	37	14	9	37	1.79
4889176--4889249	30	2.5	31	75	6	80	32	12	8	47	1.70
4889207--4889281	30	2.5	30	77	0	78	33	14	14	37	1.87
4890076--4890110	16	2.1	17	89	5	54	31	2	2	62	1.24
4893212--4893255	18	2.4	18	100	0	88	47	20	20	11	1.80
4896924--4897130	78	2.7	78	88	0	288	34	13	18	33	1.90
4899764--4899832	33	2.1	33	91	0	111	21	30	11	36	1.89
4910716--4910820	49	2.1	49	100	0	210	23	12	13	50	1.75
4911155--4911257	45	2.3	44	83	4	127	39	11	12	35	1.80
4911275--4911398	43	2.9	43	87	1	178	36	16	17	29	1.93
4911526--4911614	24	3.9	23	78	11	76	40	14	19	25	1.89
4911580--4911707	23	5.7	22	72	11	75	36	7	23	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4911525--4911659	23	5.9	23	72	10	87	38	13	19	28	1.89
4911549--4911682	24	5.8	24	71	8	80	38	11	20	30	1.87
4911532--4911700	92	1.8	92	87	3	241	37	11	21	30	1.88
4923390--4923512	28	4.5	28	73	10	101	30	17	16	34	1.92
4923385--4923512	55	2.3	54	81	6	159	29	17	17	35	1.92
4923962--4924011	12	4.1	12	78	2	55	44	2	8	46	1.44
4927130--4927170	15	2.4	18	76	23	61	58	19	12	9	1.61
4927133--4927166	15	2.3	15	100	0	68	52	23	11	11	1.70
4930472--4930612	45	3.2	45	83	4	178	35	16	16	31	1.91
4930472--4930629	45	3.5	46	82	4	164	36	15	16	31	1.90
4930651--4930712	26	2.4	25	76	10	63	46	9	11	32	1.72
4930681--4930775	31	3.1	31	83	8	124	41	10	12	35	1.78
4936781--4936834	29	1.9	27	85	7	72	33	5	0	61	1.19
4937856--4937896	2	20.5	2	100	0	82	48	0	0	51	1.00
4939757--4939858	51	2.0	51	82	0	123	31	14	9	44	1.78
4945530--4945597	36	1.9	36	84	3	93	13	22	29	35	1.92
4946366--4946466	34	3.0	34	88	0	139	36	9	12	40	1.77
4946964--4947026	27	2.3	27	80	0	81	38	17	15	28	1.91
4946996--4947065	33	2.1	33	87	10	99	35	12	15	35	1.86
4947088--4947141	28	1.9	28	84	0	72	40	16	14	27	1.88
4947143--4947185	21	2.0	22	82	13	54	69	0	11	18	1.17
4947261--4947335	39	1.9	38	84	10	98	44	13	10	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4947625--4947653	2	14.5	2	100	0	58	48	0	0	51	1.00
4957242--4957277	13	2.8	13	91	0	54	30	0	11	58	1.33
4962409--4962500	29	3.2	29	84	3	123	28	8	26	36	1.86
4964537--4964570	17	2.1	16	88	5	50	52	5	14	26	1.64
4965211--4965261	16	3.5	15	78	10	61	27	0	11	60	1.31
4969940--4969980	21	2.0	21	85	0	55	7	9	2	80	0.99
4976059--4976234	58	3.1	58	84	6	218	37	16	7	38	1.78
4977615--4977652	18	2.1	18	95	0	67	18	13	5	63	1.48
4980464--4980498	16	2.2	16	89	0	52	65	8	5	20	1.40
4980490--4980516	6	4.5	6	100	0	54	70	14	0	14	1.17
4988681--4988721	19	2.1	20	86	13	59	9	17	14	58	1.62
5000567--5000646	41	2.0	41	82	7	101	46	8	0	45	1.34
5001013--5001058	17	2.7	18	77	16	53	23	0	0	76	0.79
5001166--5001213	21	2.2	21	85	3	60	29	0	4	66	1.10
5008323--5008357	15	2.3	15	90	0	52	54	8	0	37	1.31
5008441--5008467	14	1.9	14	100	0	54	59	11	0	29	1.32
5011517--5011563	24	2.0	24	83	8	60	38	14	6	40	1.72
5016559--5016648	47	1.9	46	97	2	171	30	28	15	25	1.96
5023468--5023563	47	2.2	42	82	15	101	35	5	10	48	1.60
5023485--5023558	24	3.1	24	64	16	64	35	5	12	47	1.64
5023485--5023576	47	2.0	47	93	0	157	33	5	11	48	1.63
5026918--5026948	2	15.5	2	100	0	62	0	0	48	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5027909--5027944	16	2.2	16	90	0	54	80	2	11	5	0.98
5030846--5030885	14	2.9	14	88	0	62	72	0	27	0	0.85
5030846--5030885	12	2.8	16	78	21	52	72	0	27	0	0.85
5033034--5033372	31	11.0	31	73	10	219	32	10	24	32	1.89
5033048--5033384	62	5.5	62	78	4	322	32	10	25	32	1.89
5033756--5033851	41	2.4	41	80	5	106	20	15	23	39	1.91
5040612--5040654	16	2.7	16	82	10	52	62	11	0	25	1.29
5044885--5044923	2	19.5	2	94	0	69	48	0	2	48	1.15
5045018--5045101	35	2.4	34	82	7	89	32	14	19	34	1.91
5064820--5064880	28	2.2	28	81	0	68	47	9	9	32	1.70

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