genome.fa.s14.2.7.7.80.10.50.1000.8.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_018397267.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_204.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6982396

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

This is table  8  of  12  ( 1406 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)
4876850--4876896	21	2.2	21	85	7	60	65	0	0	34	0.93
4901452--4901483	16	2.0	16	93	0	55	12	21	0	65	1.25
4903353--4903400	11	4.2	11	81	7	60	33	8	0	58	1.28
4903372--4903400	15	1.9	15	100	0	58	34	10	0	55	1.34
4906083--4906122	17	2.2	19	86	8	57	37	5	0	57	1.21
4916747--4916780	16	2.2	16	89	5	52	61	17	2	17	1.46
4919925--4919965	17	2.5	17	88	4	57	53	0	4	41	1.22
4919928--4920398	212	2.2	217	85	5	614	46	4	7	41	1.53
4920647--4920680	16	2.1	16	94	0	59	38	0	5	55	1.24
4920690--4920735	23	1.9	23	86	8	65	58	4	0	36	1.18
4923483--4923559	35	2.2	35	86	2	111	59	12	0	27	1.34
4925620--4925646	2	13.5	2	100	0	54	51	0	0	48	1.00
4925903--4925943	2	20.5	2	89	0	64	46	2	0	51	1.14
4928202--4928249	25	1.9	25	91	0	78	70	0	25	4	1.04
4928524--4928572	15	3.3	15	85	5	64	79	0	18	2	0.83
4928530--4928597	20	3.5	19	77	18	52	75	1	23	0	0.89
4929720--4929776	25	2.3	25	87	0	87	56	0	1	42	1.10
4932562--4932621	24	2.5	24	88	0	84	43	20	15	21	1.88
4933040--4933088	15	3.3	15	82	0	53	46	2	12	38	1.53
4933064--4933110	15	3.1	15	87	0	58	46	0	10	42	1.38
4933033--4933112	30	2.6	30	78	5	81	47	2	10	40	1.50
4933333--4933380	6	7.7	6	77	9	51	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4933331--4933410	13	6.4	13	73	21	73	30	0	0	70	0.88
4933328--4933422	27	3.4	28	73	18	63	31	0	0	68	0.90
4933328--4933411	32	2.6	32	90	3	125	30	0	0	69	0.89
4938135--4938178	18	2.5	18	85	3	54	38	0	6	54	1.27
4938441--4938479	19	2.0	20	90	5	62	43	5	7	43	1.55
4938441--4938480	20	2.0	20	90	0	62	45	5	7	42	1.54
4938509--4938547	18	2.2	17	86	4	51	35	2	0	61	1.10
4940101--4940150	26	1.9	26	95	0	91	60	10	6	24	1.51
4947576--4947608	3	11.0	3	93	0	57	33	63	0	3	1.10
4957605--4957639	16	2.2	16	90	5	54	42	11	28	17	1.83
4961933--4961969	2	19.5	2	89	10	60	48	0	0	51	1.00
4981315--4981371	22	2.6	22	77	0	69	26	8	17	47	1.77
4981261--4981371	44	2.5	44	79	2	116	29	7	15	47	1.72
4982059--4982098	20	2.0	20	90	0	62	77	2	0	20	0.88
4988650--4988737	29	3.0	29	81	0	113	15	22	12	48	1.79
4996296--4996428	67	2.0	67	89	0	203	24	18	14	42	1.87
5000032--5000064	2	16.5	2	93	0	57	48	3	0	48	1.17
5011502--5011527	4	6.5	4	100	0	52	0	26	0	73	0.84
5012606--5012734	27	4.7	28	82	5	147	42	3	3	51	1.33
5012606--5012737	28	4.8	29	82	6	141	43	3	3	50	1.33
5020577--5020626	19	2.4	21	83	9	59	56	0	0	44	0.99
5020582--5020636	28	2.0	27	82	10	67	56	1	0	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5022210--5022257	23	2.1	23	84	7	62	56	2	0	41	1.11
5023555--5023595	2	21.5	2	85	9	59	46	0	0	53	1.00
5024282--5024306	2	12.5	2	100	0	50	48	0	0	52	1.00
5028947--5028988	3	14.0	3	94	0	75	64	0	2	33	1.07
5033095--5033127	3	11.0	3	93	0	57	36	0	63	0	0.95
5033467--5033502	12	3.0	12	91	0	54	63	11	2	22	1.39
5038053--5038095	19	2.3	20	80	15	56	58	2	2	37	1.24
5043343--5043367	11	2.3	11	100	0	50	92	0	0	8	0.40
5045932--5046030	49	2.0	49	98	0	189	25	9	24	41	1.84
5053052--5053093	3	14.0	3	100	0	84	33	33	33	0	1.58
5056667--5056724	19	3.0	19	75	12	64	46	3	1	48	1.29
5072626--5072689	29	2.3	28	86	5	85	64	0	0	35	0.94
5074024--5074065	5	8.8	5	92	5	52	85	0	14	0	0.59
5076610--5076844	116	2.0	117	85	2	312	22	21	16	39	1.92
5094857--5095141	144	2.0	144	89	1	437	33	20	16	28	1.95
5112143--5112291	6	24.8	6	72	10	72	8	23	31	36	1.85
5112140--5112291	21	6.8	21	71	16	92	8	23	31	36	1.85
5112221--5112291	9	7.9	9	72	0	61	8	28	30	32	1.87
5112220--5112291	27	2.7	27	88	0	99	8	27	30	33	1.86
5112790--5112849	3	20.0	3	85	0	57	0	23	35	41	1.55
5112803--5112846	12	3.7	12	90	0	70	0	18	34	47	1.49
5120291--5120341	2	25.5	2	100	0	102	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5132168--5132218	25	2.0	25	96	0	93	19	35	15	29	1.93
5138406--5138471	28	2.4	26	82	12	71	60	1	3	34	1.21
5143754--5143783	14	2.1	14	93	0	51	23	13	46	16	1.82
5144342--5144366	8	3.1	8	100	0	50	24	24	16	36	1.94
5158508--5158580	36	2.0	36	86	0	101	28	35	8	27	1.86
5164016--5164054	20	1.9	21	84	5	53	46	0	0	53	1.00
5164016--5164071	24	2.5	21	85	8	67	48	0	1	50	1.11
5170161--5170223	30	2.1	30	84	3	81	52	6	6	34	1.52
5171071--5171100	3	10.0	3	100	0	60	66	0	0	33	0.92
5175415--5175800	131	2.9	131	94	0	673	24	12	15	46	1.81
5196570--5196594	2	12.5	2	100	0	50	48	0	0	52	1.00
5198842--5198886	14	3.2	14	96	0	81	73	8	17	0	1.08
5205017--5205090	39	1.9	38	86	2	103	43	10	5	40	1.63
5206105--5206139	18	1.9	18	88	11	54	28	0	2	68	1.04
5211957--5211998	15	2.8	15	81	0	57	33	7	26	33	1.83
5212167--5212240	33	2.2	34	87	2	105	28	5	0	66	1.14
5214096--5214142	18	2.6	18	93	0	76	38	4	2	55	1.31
5218372--5218419	13	3.4	15	78	18	50	64	0	2	33	1.05
5218424--5218495	20	3.7	19	77	20	69	47	2	4	45	1.36
5219879--5219903	4	6.2	4	100	0	50	76	0	0	24	0.80
5222995--5223040	13	3.4	14	82	8	51	56	2	2	39	1.24
5223003--5223040	14	2.9	13	85	11	51	57	2	2	36	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5232827--5232896	31	2.3	30	83	11	88	32	1	21	44	1.61
5232860--5232917	26	2.2	26	87	0	80	29	1	20	48	1.60
5233039--5233087	20	2.3	23	80	16	61	42	0	4	53	1.20
5234780--5234807	2	14.0	2	100	0	56	50	0	0	50	1.00
5236285--5236364	42	1.9	42	92	0	133	40	15	6	38	1.72
5237973--5238041	17	4.3	17	71	15	58	47	2	0	49	1.16
5246963--5247007	15	3.2	14	84	6	56	75	2	0	22	0.91
5261076--5261123	25	2.0	25	83	4	62	45	0	4	50	1.21
5263141--5263168	2	14.0	2	100	0	56	0	50	0	50	1.00
5269206--5270360	441	2.6	438	81	5	1293	40	12	21	25	1.88
5269206--5270360	444	2.6	437	80	4	1298	40	12	21	25	1.88
5270390--5270473	40	2.1	41	90	2	134	28	3	40	27	1.73
5270226--5270632	203	2.0	203	86	2	568	38	8	31	21	1.84
5273284--5273335	21	2.5	20	90	9	86	44	13	5	36	1.68
5276276--5276380	52	2.0	52	100	0	210	35	36	9	19	1.84
5280656--5280732	31	2.6	28	73	8	73	41	1	0	57	1.07
5280891--5280930	20	2.1	19	85	4	53	2	25	0	72	0.97
5287848--5287884	19	1.9	19	89	10	58	45	0	0	54	1.00
5289062--5289107	14	3.4	14	77	22	53	4	19	0	76	0.96
5296538--5296573	15	2.5	15	90	4	56	77	0	19	2	0.88
5298843--5298869	14	1.9	14	100	0	54	70	0	22	7	1.12
5300384--5300420	19	2.0	20	89	10	60	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5300386--5300454	31	2.2	33	82	10	81	53	0	0	46	1.00
5300480--5300506	14	1.9	14	100	0	54	7	22	0	70	1.12
5302550--5302717	83	2.0	83	94	2	293	26	17	31	23	1.97
5313971--5314005	18	1.9	18	88	0	52	71	2	0	25	1.00
5314148--5314197	23	2.2	22	82	13	57	54	18	4	24	1.61
5314769--5314840	35	2.0	36	86	5	101	38	9	9	41	1.71
5320016--5320143	63	2.0	61	82	12	154	60	12	22	4	1.51
5320179--5320222	18	2.4	19	80	3	54	72	0	20	6	1.07
5320239--5320319	33	2.5	34	82	13	91	48	0	0	51	1.00
5320283--5320321	20	2.0	20	89	0	60	46	0	0	53	1.00

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