genome.fa.s15.2.7.7.80.10.50.1000.10.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  10  of  13  ( 1452 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)
4751631--4751672	20	2.0	21	90	4	68	47	0	4	47	1.23
4763860--4763914	20	2.8	20	80	0	65	32	14	16	36	1.89
4767649--4767680	15	2.1	16	94	5	57	0	15	3	81	0.82
4768325--4768382	22	2.6	22	83	0	71	27	15	15	41	1.87
4768434--4768502	22	3.1	22	77	4	68	40	23	13	23	1.89
4770364--4770404	18	2.3	18	80	15	50	26	0	2	70	0.99
4786915--4786971	17	3.4	17	80	14	64	66	0	31	1	1.02
4787025--4787114	46	1.9	45	82	10	110	64	2	33	0	1.06
4787035--4787110	38	1.9	38	82	10	91	61	2	35	0	1.10
4787019--4787109	14	6.1	14	69	21	53	64	2	32	0	1.05
4787148--4787179	2	16.5	2	93	6	57	53	0	0	46	1.00
4787849--4787932	22	4.1	19	71	20	62	66	3	4	25	1.27
4787919--4787944	9	2.9	9	100	0	52	80	0	0	19	0.71
4792154--4792202	10	4.6	10	85	10	62	0	14	4	81	0.83
4798395--4798425	15	2.1	15	93	0	53	41	0	3	54	1.16
4798843--4798874	16	1.9	17	93	6	57	0	28	9	62	1.26
4814495--4814531	18	2.1	18	94	0	65	48	16	13	21	1.80
4824993--4825094	51	2.0	51	96	0	186	53	7	15	22	1.67
4828468--4828504	13	2.8	13	95	0	65	48	10	8	32	1.67
4834235--4834278	21	2.0	22	86	4	63	29	0	9	61	1.27
4844033--4844088	29	2.0	28	86	10	78	26	21	14	37	1.92
4844596--4844689	43	2.2	42	83	7	118	26	19	10	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4845032--4845074	20	2.2	20	95	0	77	23	25	9	41	1.84
4846980--4847023	10	4.3	10	83	13	54	65	2	6	25	1.28
4846980--4847023	21	2.1	21	88	12	65	65	2	6	25	1.28
4849632--4849694	28	2.3	28	91	2	101	23	20	15	39	1.91
4851017--4851086	34	2.2	33	82	12	83	34	27	5	32	1.80
4855120--4855162	12	3.5	12	84	9	52	74	0	4	20	1.00
4856246--4856299	23	2.3	24	81	9	67	42	5	1	50	1.36
4858209--4858242	18	1.9	17	88	5	50	26	8	14	50	1.72
4873389--4873432	22	2.0	22	90	0	70	31	4	29	34	1.78
4873434--4873477	21	2.0	22	86	4	63	11	4	27	56	1.53
4877816--4877859	23	2.0	23	82	13	56	47	27	2	22	1.63
4885669--4885753	23	3.7	23	75	6	73	43	28	10	17	1.82
4885749--4885787	21	1.9	20	89	5	60	38	30	7	23	1.83
4890335--4890382	2	24.0	2	100	0	96	50	0	0	50	1.00
4897067--4897126	22	2.7	22	92	0	102	16	36	21	25	1.94
4902560--4902618	25	2.4	25	88	0	82	27	32	15	25	1.95
4907728--4907787	31	1.9	31	96	0	111	25	13	25	36	1.92
4914331--4914356	2	13.0	2	100	0	52	50	0	0	50	1.00
4916472--4917156	343	2.0	338	82	7	835	42	6	5	45	1.54
4917414--4917451	2	19.5	2	94	5	69	50	0	0	50	1.00
4927073--4927111	20	2.0	20	90	10	62	15	7	17	58	1.59
4932340--4932365	11	2.4	11	100	0	52	53	0	7	38	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4932324--4932380	16	3.2	16	69	21	51	43	0	14	42	1.44
4933108--4936657	250	14.4	247	74	9	2078	34	10	5	47	1.60
4933117--4936629	498	7.1	498	76	8	2317	34	9	5	48	1.60
4933108--4936629	753	4.8	747	75	9	2230	34	9	5	48	1.60
4935069--4935121	17	3.1	16	81	13	52	32	7	5	54	1.52
4934626--4935986	715	1.9	690	80	7	1384	34	10	5	46	1.62
4935655--4936136	249	1.9	253	82	3	607	35	10	5	48	1.60
4936323--4936368	20	2.4	19	86	13	60	39	4	8	47	1.54
4936513--4936556	20	2.1	21	83	4	54	38	2	2	56	1.24
4936678--4937155	252	1.9	242	81	3	496	31	8	8	47	1.64
4948800--4948825	2	13.0	2	100	0	52	50	0	0	50	1.00
4956510--4956540	15	2.0	16	93	6	55	41	19	0	38	1.51
4959743--4959794	23	2.3	23	96	0	95	53	17	9	19	1.70
4964267--4964305	19	2.1	19	85	9	53	53	0	0	46	1.00
4964263--4964308	17	2.6	18	75	3	58	60	0	0	39	0.97
4965572--4965760	27	6.9	28	79	3	195	41	19	6	31	1.78
4965574--4965760	55	3.4	55	85	0	239	42	19	6	31	1.77
4965574--4965769	28	7.1	28	81	3	191	42	18	7	31	1.78
4966285--4966364	28	2.9	28	88	7	128	40	17	8	33	1.81
4966285--4966445	55	2.9	55	81	2	182	40	16	9	34	1.80
4966285--4966465	27	6.6	27	77	5	123	39	15	9	34	1.81
4966287--4966502	109	2.0	110	79	4	240	39	15	10	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4966923--4967149	27	8.3	28	75	7	155	38	14	11	35	1.82
4966923--4967149	55	4.2	55	76	5	183	38	14	11	35	1.82
4966954--4967149	82	2.4	82	82	4	227	39	14	10	35	1.80
4965781--4967190	638	2.2	637	90	1	2216	33	18	11	36	1.87
4967368--4967412	23	2.0	23	90	0	72	42	28	4	24	1.74
4972372--4972787	212	2.0	205	82	9	493	50	5	9	35	1.56
4972929--4973067	72	1.9	73	89	1	217	43	4	13	38	1.64
4975136--4975195	18	3.7	17	71	26	58	35	5	20	40	1.74
4975132--4975197	30	2.2	30	94	0	114	36	4	21	37	1.74
4984032--4984122	29	3.1	29	82	4	103	23	10	29	36	1.89
4984824--4984861	8	4.8	8	90	0	58	10	23	0	65	1.23
4994820--4994882	3	21.0	3	100	0	126	33	0	0	66	0.92
4995568--4995722	78	2.0	79	81	10	183	30	20	10	38	1.86
5009641--5009675	18	1.9	18	88	0	52	17	14	11	57	1.66
5012574--5012608	18	1.9	19	88	11	56	2	17	0	80	0.84
5014091--5014176	32	2.5	33	82	10	102	32	5	16	45	1.71
5014114--5014202	36	2.5	35	85	3	115	32	5	15	46	1.70
5019832--5019861	10	3.0	10	90	0	51	53	10	6	30	1.60
5028971--5029001	14	2.1	15	94	5	55	41	6	0	51	1.27
5030351--5030403	21	2.5	22	82	8	58	54	1	1	41	1.22
5030396--5030430	15	2.2	15	90	10	52	57	0	0	42	0.99
5030752--5030986	42	5.8	41	68	17	134	54	2	1	41	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5030805--5030887	27	3.3	26	80	11	93	59	2	1	37	1.19
5030830--5030877	15	3.4	15	72	16	57	58	0	0	41	0.98
5030838--5030893	27	2.2	26	83	6	69	64	0	0	35	0.94
5031520--5031620	46	2.2	46	83	3	123	37	2	10	48	1.54
5040922--5041211	80	3.6	80	85	1	368	32	24	9	33	1.88
5041036--5041160	40	3.1	40	62	24	100	32	24	8	34	1.85
5060924--5060956	13	2.6	13	90	4	50	63	21	3	12	1.41
5066639--5066665	2	13.5	2	100	0	54	48	0	0	51	1.00
5067238--5067286	23	2.1	23	88	7	73	57	4	2	36	1.30
5068218--5068259	15	2.7	16	85	10	52	50	7	0	42	1.30
5069068--5069151	33	2.6	33	83	3	109	25	19	36	19	1.94
5080597--5080691	49	1.9	49	93	0	163	34	6	28	30	1.82
5093720--5093865	76	1.9	76	94	2	258	36	11	7	44	1.69
5094122--5094164	21	2.0	21	82	8	52	27	46	0	25	1.53
5101913--5101941	1	29.0	1	100	0	58	0	0	0	100	0.00
5113393--5113471	40	2.0	40	82	9	99	22	21	20	35	1.96
5114535--5114577	19	2.2	20	91	4	70	37	0	6	55	1.27
5121415--5121567	22	6.9	21	71	12	101	36	18	12	32	1.89
5121415--5121567	44	3.4	43	81	5	153	36	18	12	32	1.89
5121576--5121672	41	2.4	41	89	0	149	26	18	13	41	1.88
5122183--5122227	20	2.2	21	88	4	65	77	15	4	2	1.02
5122350--5122388	21	1.9	21	89	5	62	66	5	15	12	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5127848--5127945	31	3.2	31	76	5	108	29	12	24	33	1.92
5129282--5129313	16	2.1	15	94	5	55	21	0	3	75	0.95
5141031--5141055	2	12.5	2	100	0	50	0	0	48	52	1.00
5149054--5149383	168	2.0	167	88	3	493	31	14	21	32	1.93
5149846--5149892	19	2.5	19	100	0	94	46	12	0	40	1.42
5161274--5161313	21	2.0	20	90	5	62	22	0	7	70	1.12
5166954--5166991	19	2.0	19	94	0	67	31	18	28	21	1.97
5168141--5168194	21	2.6	21	80	11	65	25	27	20	25	1.99
5173224--5173262	19	2.2	18	86	9	53	58	5	17	17	1.56
5173924--5173955	14	2.3	14	94	0	55	53	6	3	37	1.42

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13