genome.fa.s2.2.7.7.80.10.50.1000.10.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   

This is table  10  of  31  ( 3649 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)
5167542--5167632	34	2.7	34	84	3	112	27	4	1	67	1.17
5180244--5180281	17	2.2	18	85	4	51	47	13	2	36	1.56
5185173--5185249	30	2.6	30	82	15	90	31	3	1	63	1.20
5185176--5185263	30	3.0	28	79	14	88	31	3	4	60	1.34
5202459--5202523	29	2.3	28	76	7	69	40	7	3	49	1.47
5202727--5202797	30	2.4	30	90	0	106	49	2	9	38	1.51
5207018--5207093	40	1.9	40	84	10	102	60	1	3	34	1.23
5207111--5207144	16	2.1	17	88	5	52	70	0	0	29	0.87
5207225--5207267	23	2.0	21	86	9	59	32	0	0	67	0.91
5207438--5207478	6	6.7	6	86	5	55	80	2	14	2	0.92
5210584--5210626	22	2.0	22	85	0	59	20	16	9	53	1.70
5228499--5228550	24	2.1	25	96	3	97	34	19	11	34	1.88
5232391--5232424	2	17.0	2	100	0	68	50	0	0	50	1.00
5245023--5245078	24	2.4	23	81	3	58	48	3	12	35	1.58
5246928--5246971	22	2.0	22	86	0	61	54	11	2	31	1.48
5247117--5247196	21	3.9	21	80	3	72	48	21	1	28	1.58
5247132--5247196	21	3.1	21	82	4	78	49	23	0	27	1.50
5247139--5247197	20	2.9	21	76	5	66	49	25	0	25	1.51
5261711--5261783	33	2.2	33	80	4	85	52	8	6	32	1.58
5262719--5262775	20	2.8	18	80	19	60	52	0	1	45	1.11
5278747--5278987	120	2.0	120	97	0	455	32	9	22	36	1.86
5292763--5292806	3	14.7	3	100	0	88	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5296264--5296297	14	2.4	14	90	9	52	70	2	14	11	1.27
5301790--5301860	36	2.0	36	85	0	97	28	7	18	46	1.75
5302005--5302084	34	2.3	35	85	8	101	26	0	6	67	1.14
5302398--5302860	239	1.9	239	85	2	631	37	10	14	37	1.80
5303904--5303947	22	1.9	23	86	9	63	50	0	4	45	1.22
5303929--5304010	31	2.8	29	75	21	73	50	0	4	45	1.23
5305605--5305814	108	1.9	108	89	0	321	37	15	3	44	1.63
5305997--5306050	18	2.8	19	75	11	56	72	1	0	25	0.95
5306851--5306919	31	2.3	29	82	9	77	44	4	5	44	1.47
5317500--5317548	22	2.2	22	82	13	57	61	2	2	34	1.19
5325725--5325775	11	4.6	11	82	7	50	19	5	0	74	1.02
5325784--5325822	21	1.9	20	84	5	51	51	2	2	43	1.29
5325844--5325876	13	2.5	13	81	18	50	21	3	0	75	0.93
5329720--5329744	2	12.5	2	100	0	50	48	0	0	52	1.00
5335692--5335779	34	2.6	34	79	0	95	22	13	26	37	1.91
5335938--5335974	19	1.9	19	88	0	56	35	2	5	56	1.36
5335937--5335983	20	2.4	19	78	3	58	40	4	6	48	1.48
5336701--5336734	17	2.1	17	94	5	61	50	0	0	50	1.00
5336700--5336734	16	2.1	18	84	15	56	51	0	0	48	1.00
5337440--5337513	5	14.2	5	80	10	78	71	0	0	28	0.86
5337429--5337501	33	2.2	33	87	7	103	68	0	0	31	0.90
5337457--5337496	9	4.3	9	81	6	53	75	0	0	25	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5337436--5337566	26	4.9	27	73	15	85	67	0	2	30	1.03
5337437--5337621	50	4.0	49	74	14	167	68	0	2	29	1.04
5337437--5337595	26	6.9	23	70	25	79	67	0	2	29	1.03
5337845--5337898	15	3.6	15	87	0	81	35	22	7	35	1.82
5340703--5340763	29	2.1	29	82	8	72	57	6	8	27	1.53
5371071--5371162	24	3.9	24	70	14	75	10	14	0	75	1.06
5371080--5371146	37	1.9	36	82	14	88	8	16	0	74	1.05
5371400--5371442	20	2.0	22	82	8	54	0	23	0	76	0.78
5387509--5387559	28	1.9	27	84	11	70	50	1	5	41	1.37
5390699--5390748	2	25.0	2	100	0	100	0	50	0	50	1.00
5392445--5392566	60	2.0	61	85	6	167	25	14	25	34	1.94
5401382--5401451	30	2.3	30	90	0	104	42	8	8	40	1.66
5401404--5401451	10	4.8	10	76	0	51	39	8	12	39	1.73
5415868--5415907	16	2.6	16	88	4	55	45	45	0	10	1.37
5421184--5421223	20	2.0	20	90	9	64	20	2	0	77	0.88
5422865--5422965	43	2.3	43	77	11	107	44	14	11	28	1.81
5429422--5429484	33	1.9	33	86	0	90	46	31	15	6	1.71
5429500--5429527	6	4.7	6	100	0	56	35	46	17	0	1.49
5431587--5431630	16	2.8	16	82	3	54	6	20	2	70	1.21
5431690--5431736	23	2.0	25	83	8	62	72	2	14	10	1.21
5437444--5437515	30	2.4	30	85	0	99	37	4	4	54	1.39
5438174--5438205	2	16.0	2	100	0	64	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)
5442604--5442646	2	22.0	2	90	4	70	0	48	0	51	1.00
5454338--5454373	16	2.2	16	100	0	72	55	5	0	38	1.23
5455736--5455802	33	2.0	33	82	0	80	43	8	7	40	1.64
5458784--5458819	2	18.0	2	100	0	72	50	0	0	50	1.00
5468544--5468573	2	15.0	2	92	0	51	0	46	0	53	1.00
5468574--5468615	2	21.0	2	95	0	75	52	0	0	47	1.00
5471690--5471889	100	2.0	100	95	0	355	29	24	19	27	1.98
5474722--5474753	3	10.7	3	93	0	55	71	0	28	0	0.86
5478284--5478317	9	3.7	9	88	7	50	50	0	0	50	1.00
5481894--5482289	200	2.0	199	93	2	679	26	13	21	38	1.91
5486770--5486808	13	2.9	13	85	7	51	46	0	0	53	1.00
5487106--5487131	2	13.0	2	100	0	52	50	50	0	0	1.00
5492722--5492790	34	2.1	34	94	2	122	43	2	24	28	1.69
5498697--5498724	2	14.0	2	100	0	56	50	0	0	50	1.00
5504476--5504784	157	2.0	156	87	3	451	43	14	14	27	1.84
5507316--5507408	45	2.1	45	95	0	168	15	32	6	46	1.71
5511916--5511955	2	20.0	2	100	0	80	50	0	0	50	1.00
5512079--5512143	28	2.3	28	81	0	76	46	10	6	36	1.64
5512086--5512242	27	5.7	27	77	10	113	42	8	6	43	1.60
5512201--5512258	27	2.1	27	83	0	71	39	10	8	41	1.70
5533447--5533528	33	2.5	33	85	0	119	47	3	7	41	1.49
5538250--5538286	3	12.3	3	88	0	56	35	2	0	62	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5545733--5546388	242	2.7	235	80	10	715	51	6	7	34	1.56
5546525--5546565	20	2.0	22	90	9	68	68	4	0	26	1.10
5551817--5551858	3	14.0	3	100	0	84	66	0	0	33	0.92
5558584--5558618	15	2.2	16	90	5	54	42	0	2	54	1.15
5562261--5562422	74	2.1	77	88	5	240	25	19	17	37	1.94
5566589--5566716	39	3.5	35	76	15	120	47	0	50	2	1.14
5566607--5566705	18	5.2	19	76	15	73	48	0	49	2	1.12
5573179--5573301	61	2.0	61	100	0	246	43	8	14	33	1.75
5579417--5579476	30	2.0	30	96	0	111	20	11	10	58	1.61
5580586--5580610	2	12.5	2	100	0	50	48	0	0	52	1.00
5582024--5582056	15	2.2	15	94	0	57	0	21	33	45	1.52
5611916--5611942	3	9.0	3	100	0	54	33	0	66	0	0.92
5616096--5616162	17	4.1	16	75	19	57	4	40	1	53	1.30
5616108--5616174	14	4.6	14	72	17	55	4	37	2	55	1.36
5616087--5616154	32	2.1	34	83	10	88	4	36	1	57	1.28
5616397--5616442	24	1.9	24	91	8	76	23	0	21	54	1.45
5625232--5625376	77	1.9	77	86	2	211	31	8	14	45	1.74
5632866--5632899	16	2.2	16	89	5	52	38	0	0	61	0.96
5634712--5634902	82	2.4	80	88	1	283	38	9	2	49	1.49
5645926--5646078	30	5.2	30	70	9	82	33	22	11	31	1.90
5649769--5649824	29	1.9	29	88	0	85	60	0	7	32	1.24
5663973--5664015	13	3.4	12	80	6	50	34	0	6	58	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5675697--5675821	30	4.2	30	88	4	173	36	3	4	56	1.37
5676158--5676244	44	2.0	43	90	2	138	31	3	8	57	1.44
5680065--5680099	2	17.5	2	87	0	52	0	54	0	45	0.99
5681773--5681870	51	1.9	51	95	0	178	29	4	11	55	1.54
5685455--5685481	6	4.5	6	100	0	54	51	0	48	0	1.00
5689376--5689438	33	1.9	33	86	0	90	33	15	6	44	1.72
5696278--5696337	8	7.4	8	73	16	52	51	1	0	46	1.10
5702812--5702853	2	21.0	2	100	0	84	50	0	0	50	1.00
5702949--5703078	49	2.7	49	96	0	233	32	10	13	43	1.79
5702976--5703304	113	2.9	113	90	0	523	29	12	16	41	1.84

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