genome.fa.s7.2.7.7.80.10.50.1000.13.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_018397260.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_51.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10072460

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

This is table  13  of  20  ( 2374 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)
5046136--5046168	12	2.6	13	90	4	50	0	12	3	84	0.72
5068093--5068414	105	3.1	104	64	19	234	40	6	4	47	1.52
5068046--5068439	210	1.9	211	89	2	614	40	6	4	47	1.51
5081987--5082032	2	23.0	2	95	0	83	52	0	47	0	1.00
5085400--5085434	17	2.1	16	89	5	52	11	17	0	71	1.14
5089745--5089778	17	2.0	17	88	11	52	55	0	0	44	0.99
5100046--5100082	2	18.5	2	100	0	74	48	0	0	51	1.00
5117944--5117970	1	27.0	1	100	0	54	0	0	100	0	0.00
5124865--5124936	16	4.2	16	68	13	54	55	1	0	43	1.08
5125882--5125974	47	2.0	47	91	0	150	29	18	22	30	1.97
5136151--5136182	17	2.0	17	88	11	50	43	0	0	56	0.99
5145143--5145204	23	2.6	25	70	14	60	43	1	3	51	1.27
5146744--5146808	21	3.3	19	77	10	60	6	41	0	52	1.26
5157130--5157175	18	2.5	18	83	13	58	21	2	2	73	1.04
5157174--5157198	10	2.5	10	100	0	50	88	0	0	12	0.53
5162726--5162757	14	2.3	15	89	10	50	0	34	6	59	1.23
5163842--5163870	14	2.1	14	100	0	58	17	34	27	20	1.95
5172570--5172602	15	2.3	15	89	5	50	48	0	3	48	1.17
5188438--5188466	2	14.5	2	100	0	58	48	0	0	51	1.00
5208690--5208732	22	2.0	22	86	9	61	53	11	6	27	1.63
5208973--5209034	31	2.0	30	81	9	72	46	3	0	50	1.17
5209648--5209680	15	2.1	16	94	5	59	0	21	3	75	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5217448--5217472	2	12.5	2	100	0	50	48	0	0	52	1.00
5218436--5218474	20	1.9	21	89	5	62	64	5	5	25	1.35
5219498--5219527	2	15.5	2	93	6	53	0	46	0	53	1.00
5221251--5221290	18	2.1	20	86	9	57	20	17	2	60	1.48
5229139--5229176	20	1.9	20	88	0	58	50	0	18	31	1.47
5231612--5231762	5	30.4	5	63	16	55	29	0	0	69	0.98
5231625--5231718	20	4.7	19	71	17	75	28	1	0	70	0.94
5231609--5231693	33	2.6	33	87	9	113	30	0	0	69	0.89
5231621--5231714	40	2.4	40	77	8	111	29	1	0	69	0.96
5231610--5231745	60	2.3	62	76	17	146	27	0	0	70	0.97
5231640--5231762	53	2.3	54	80	5	151	30	0	0	68	1.01
5232070--5232123	27	2.0	27	100	0	108	14	22	18	44	1.86
5259955--5259979	2	12.5	2	100	0	50	48	0	0	52	1.00
5261825--5261854	2	15.0	2	100	0	60	50	0	50	0	1.00
5263666--5263693	14	2.0	14	100	0	56	14	35	7	42	1.73
5264675--5264713	2	20.0	2	94	5	71	51	0	0	48	1.00
5275970--5276024	26	2.1	26	100	0	110	27	18	14	40	1.89
5280622--5280721	52	1.9	51	86	6	139	36	14	18	32	1.90
5286832--5286856	12	2.1	12	100	0	50	40	16	8	36	1.77
5287990--5288044	16	3.5	15	73	11	56	40	1	0	58	1.09
5288526--5288571	24	2.0	24	86	4	67	45	2	2	50	1.26
5288536--5288581	24	1.9	24	86	0	65	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5298902--5299001	31	3.2	31	78	10	82	66	2	6	26	1.26
5299295--5299339	15	3.0	15	93	0	81	33	24	6	35	1.82
5299295--5299351	30	1.9	30	88	0	87	36	22	5	35	1.77
5303802--5303897	22	4.4	22	72	5	70	40	1	0	58	1.05
5303802--5303897	21	4.4	20	73	18	68	40	1	0	58	1.05
5304301--5304366	24	2.8	22	84	9	69	37	6	4	51	1.47
5304810--5304842	16	2.1	16	94	0	57	39	0	0	60	0.97
5305692--5305734	21	2.0	21	100	0	86	37	13	9	39	1.78
5307560--5307600	22	2.0	21	90	9	66	48	0	0	51	1.00
5307863--5307942	22	3.8	21	73	18	60	55	5	3	36	1.40
5307913--5307965	27	2.0	26	85	3	70	56	0	5	37	1.23
5307873--5307972	22	4.3	22	71	12	74	58	4	3	35	1.32
5307774--5308091	178	1.8	174	87	4	476	54	3	2	39	1.32
5308031--5308142	26	4.5	26	70	17	94	52	1	1	43	1.22
5323630--5323664	17	2.1	17	94	0	61	62	0	5	31	1.18
5348512--5348579	15	4.4	15	81	5	73	39	7	19	33	1.79
5348738--5348833	27	3.4	27	69	10	68	33	3	0	63	1.10
5348737--5348884	43	3.2	43	68	22	122	33	2	0	63	1.09
5348797--5349428	26	24.3	27	66	23	108	32	1	0	64	1.09
5348802--5348847	21	2.2	20	81	11	58	28	0	0	71	0.86
5348731--5348935	95	2.1	96	94	2	358	32	2	0	64	1.10
5348795--5349276	15	30.1	15	68	20	216	32	1	0	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5348898--5348971	21	3.5	22	79	20	86	32	0	0	67	0.91
5348828--5349275	113	4.0	113	90	6	723	33	2	0	64	1.09
5349008--5349081	6	12.0	6	70	16	53	27	0	0	72	0.84
5348835--5349256	171	2.5	171	76	14	424	33	2	0	63	1.10
5348813--5349252	59	7.6	59	70	19	290	33	2	0	64	1.09
5349177--5349271	25	3.8	23	75	22	86	34	0	0	65	0.93
5348874--5349309	87	5.1	87	68	22	239	33	2	0	64	1.09
5348796--5349275	225	2.1	229	92	5	803	32	1	0	64	1.07
5349125--5349312	49	3.9	48	75	14	140	32	1	0	66	0.99
5349227--5349310	32	2.6	32	88	3	116	29	1	0	69	0.97
5348873--5349316	38	11.9	37	65	24	136	33	2	0	64	1.09
5349325--5349376	23	2.3	23	83	6	61	30	0	1	67	1.02
5349213--5349400	53	3.4	52	69	24	136	30	1	1	67	1.07
5349344--5349404	6	9.5	6	73	19	52	26	0	0	73	0.83
5349356--5349404	14	3.6	14	84	10	66	26	0	0	73	0.83
5349109--5349410	78	4.0	79	72	18	241	31	1	0	65	1.09
5391803--5391831	7	4.1	7	100	0	58	13	13	27	44	1.82
5398686--5398742	30	1.9	29	92	3	96	68	0	14	17	1.21
5403665--5403700	12	3.0	12	87	0	54	0	38	8	52	1.32
5412042--5412080	14	2.7	14	85	14	53	64	2	0	33	1.08
5412037--5412081	22	2.1	21	87	4	63	64	4	0	31	1.13
5412042--5412083	15	2.9	15	75	17	52	64	2	0	33	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5415933--5415992	10	5.9	10	75	14	52	36	0	0	63	0.95
5415966--5415999	15	2.4	14	90	9	52	47	0	0	52	1.00
5416044--5416081	18	2.1	18	90	0	58	34	2	0	63	1.09
5417024--5417217	97	2.0	96	90	3	309	34	4	9	51	1.56
5417126--5417271	75	1.9	76	88	1	222	34	7	11	45	1.69
5417356--5417436	26	2.9	29	76	12	87	48	9	11	30	1.71
5417379--5417463	26	3.2	26	88	1	116	47	8	11	32	1.70
5417476--5417548	24	2.8	26	74	17	80	47	8	8	35	1.63
5417405--5417649	130	1.9	127	80	5	287	46	8	8	36	1.65
5435498--5435530	16	1.9	18	88	11	52	12	36	3	48	1.56
5456462--5456501	21	1.9	21	85	10	55	47	2	2	47	1.29
5460058--5460103	24	2.0	23	87	12	67	43	0	0	56	0.99
5464690--5464764	35	2.1	35	87	0	105	50	8	1	40	1.40
5487890--5487929	2	20.0	2	94	0	71	52	0	0	47	1.00
5493788--5493818	15	2.1	15	94	5	55	6	9	0	83	0.79
5497262--5497314	24	2.2	24	100	0	106	33	16	11	37	1.85
5499488--5499633	51	2.8	50	79	11	161	56	3	5	34	1.39
5499487--5499629	53	2.8	51	81	12	168	58	4	5	32	1.41
5501997--5502081	34	2.4	34	86	7	109	56	0	0	43	0.99
5502044--5502082	13	2.8	14	84	11	53	53	0	0	46	1.00
5508297--5508328	3	10.7	3	100	0	64	34	0	31	34	1.58
5511899--5511956	24	2.4	24	100	0	116	36	17	31	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5517305--5517335	4	7.5	4	96	3	53	48	0	22	29	1.51
5526740--5526767	2	14.0	2	100	0	56	50	0	50	0	1.00
5542202--5542230	2	15.0	2	92	7	51	51	0	0	48	1.00
5544737--5544830	29	3.2	29	86	1	125	43	9	6	40	1.63
5558657--5558753	43	2.3	43	98	0	185	29	16	43	10	1.81
5558664--5558732	22	3.2	22	66	25	65	28	17	42	11	1.84
5558687--5558753	21	3.1	21	69	26	68	28	17	43	10	1.82
5567232--5567273	16	2.7	15	79	20	50	38	2	19	40	1.64
5571174--5571215	22	1.9	23	85	9	61	26	2	7	64	1.32
5597365--5597418	22	2.3	24	82	17	69	33	3	9	53	1.50

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