genome.fa.s9.2.7.7.80.10.50.1000.13.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_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8984705

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  ( 2302 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)
4851304--4851341	17	2.2	17	86	13	51	68	5	0	26	1.11
4863476--4863510	18	1.9	18	94	0	61	0	42	0	57	0.99
4864754--4864789	17	2.1	18	89	5	56	2	30	0	66	1.06
4868240--4868295	18	3.3	18	73	7	55	19	0	8	71	1.12
4873520--4873549	2	15.0	2	92	0	51	50	0	3	46	1.18
4873510--4873548	12	3.2	12	88	0	51	53	0	7	38	1.30
4875244--4875303	31	1.9	31	86	0	84	21	28	11	38	1.89
4886660--4886740	30	2.7	30	82	1	101	34	0	2	62	1.08
4886660--4886792	57	2.3	57	82	2	158	35	3	2	58	1.28
4886695--4886808	29	4.0	28	75	16	108	37	5	2	54	1.37
4898872--4898904	17	2.0	17	88	5	50	66	3	3	27	1.21
4899112--4899149	19	2.0	19	100	0	76	36	15	26	21	1.93
4900097--4900236	54	2.6	54	97	0	271	18	20	28	32	1.96
4904691--4904769	40	2.0	40	85	5	106	21	22	22	32	1.98
4913079--4913112	14	2.2	16	90	10	54	0	14	2	82	0.79
4920270--4920319	19	2.6	19	83	3	64	40	0	0	60	0.97
4920270--4920322	20	2.7	19	85	5	61	39	0	0	60	0.97
4921223--4921266	15	2.9	15	89	0	61	36	25	4	34	1.76
4924806--4924844	21	1.9	21	89	5	62	25	5	2	66	1.25
4926485--4926553	17	4.1	17	68	20	56	52	2	0	44	1.16
4926496--4926604	43	2.5	41	78	12	103	59	0	0	39	1.04
4926538--4926592	20	3.0	19	75	20	55	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4926544--4926601	17	3.2	17	79	13	55	65	0	0	34	0.93
4926552--4926603	18	2.8	18	77	16	54	67	0	0	32	0.91
4926575--4927055	269	1.8	263	87	6	727	51	1	3	43	1.30
4927002--4927081	17	5.2	16	72	18	55	55	0	1	43	1.08
4926960--4927544	43	13.3	42	65	18	158	52	1	3	42	1.29
4926980--4927091	44	2.6	43	81	8	113	57	0	1	41	1.09
4926837--4927272	218	2.0	222	88	6	654	52	1	3	42	1.28
4927203--4927293	42	2.2	42	80	9	105	50	1	5	42	1.32
4927289--4927345	27	2.2	26	81	6	62	52	3	3	40	1.35
4926517--4927544	487	2.1	487	94	2	1816	52	1	3	42	1.29
4927071--4927657	269	2.2	268	84	5	735	51	2	4	42	1.33
4927463--4927539	20	3.7	20	73	14	66	57	1	2	38	1.21
4928088--4928241	46	3.4	46	87	3	206	23	25	29	21	1.99
4933111--4933149	18	2.2	18	90	0	60	56	0	0	43	0.99
4941500--4941568	35	2.0	35	91	2	113	27	21	11	39	1.88
4945723--4945767	4	11.2	4	85	0	63	24	0	24	51	1.49
4946346--4946376	13	2.5	13	94	5	55	12	19	6	61	1.53
4974399--4974448	18	2.8	18	75	0	55	28	14	12	46	1.79
4983999--4984125	63	2.0	63	98	0	245	40	20	14	25	1.90
4992672--4992816	64	2.3	64	83	7	179	42	5	7	44	1.56
4999365--4999389	2	12.5	2	100	0	50	52	0	0	48	1.00
5004127--5004160	11	3.2	11	87	4	52	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5015736--5015772	2	19.0	2	94	5	67	48	0	51	0	1.00
5024189--5024257	35	2.0	35	97	2	131	31	26	8	33	1.87
5024733--5024773	10	4.1	10	90	0	55	48	7	0	43	1.30
5024736--5024764	2	14.5	2	100	0	58	51	0	0	48	1.00
5027047--5027182	67	2.0	66	82	9	161	38	8	14	38	1.78
5028758--5028793	3	12.0	3	93	0	63	0	33	2	63	1.08
5028791--5028829	2	19.5	2	94	0	69	0	46	2	51	1.14
5041658--5041731	27	2.7	28	85	2	87	41	0	2	55	1.14
5041714--5041761	15	3.2	14	77	13	51	50	2	0	47	1.12
5042030--5042136	41	2.7	39	78	7	115	47	1	2	47	1.27
5043186--5043262	29	2.7	29	91	0	118	25	10	7	55	1.60
5043182--5043314	29	4.5	31	78	11	93	33	9	6	51	1.60
5045271--5045300	14	2.1	15	93	6	53	40	3	0	56	1.16
5046335--5046371	17	2.2	18	90	9	60	29	0	5	64	1.15
5048704--5048785	33	2.6	30	79	7	92	41	0	1	57	1.06
5061028--5061055	13	2.2	13	100	0	56	53	14	0	32	1.41
5069445--5069502	24	2.4	24	100	0	116	34	0	0	65	0.93
5069457--5069502	15	3.5	15	67	32	50	34	0	0	65	0.93
5070239--5070277	20	2.1	17	86	13	51	71	2	2	23	1.10
5070884--5070918	3	11.7	3	93	0	61	0	2	34	62	1.10
5070881--5070919	9	4.3	9	93	0	60	0	7	33	58	1.26
5074066--5074114	2	25.0	2	83	4	64	51	0	4	44	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5074293--5074317	2	12.5	2	100	0	50	0	52	0	48	1.00
5076969--5077002	2	17.0	2	100	0	68	50	0	50	0	1.00
5087298--5087342	2	22.5	2	95	0	81	0	46	2	51	1.13
5092392--5092459	26	2.6	26	79	11	68	33	5	1	58	1.31
5097210--5097277	34	2.0	34	100	0	136	29	17	23	29	1.97
5098668--5098708	21	2.0	21	85	0	55	68	4	2	24	1.22
5102437--5102496	29	2.2	26	82	8	66	55	0	6	38	1.27
5103392--5103441	8	6.1	8	78	19	50	50	2	4	44	1.32
5122316--5122364	6	8.2	6	76	0	53	44	6	4	44	1.47
5122316--5122364	14	3.4	14	88	5	71	44	6	4	44	1.47
5122316--5122364	8	6.1	8	80	0	53	44	6	4	44	1.47
5122316--5122364	10	4.9	10	79	0	53	44	6	4	44	1.47
5129110--5129147	20	2.0	20	94	5	69	15	15	5	63	1.48
5135088--5135120	15	2.3	15	89	5	50	21	9	6	63	1.45
5152729--5152771	3	14.3	3	90	0	68	60	0	39	0	0.97
5153331--5153362	3	10.7	3	100	0	64	65	0	34	0	0.93
5172951--5173119	34	5.0	34	81	2	144	36	23	15	24	1.94
5172951--5173085	68	2.0	68	83	0	171	37	24	14	23	1.92
5173001--5173139	34	4.1	34	81	1	136	34	25	16	23	1.95
5192618--5192645	3	9.3	3	100	0	56	0	64	0	35	0.94
5193367--5193397	16	2.0	16	93	6	55	38	9	0	51	1.35
5197399--5197440	2	21.0	2	85	0	57	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5197641--5197689	24	2.0	24	92	0	80	44	28	12	14	1.81
5203213--5203648	216	2.0	218	87	3	639	44	10	9	36	1.71
5204959--5205010	21	2.5	21	87	6	70	53	11	5	28	1.60
5205191--5205231	2	20.5	2	100	0	82	51	0	0	48	1.00
5208362--5208395	2	17.5	2	93	6	61	50	0	0	50	1.00
5210448--5210497	17	3.1	16	83	11	57	28	0	10	62	1.27
5221506--5221543	6	6.5	6	82	17	53	84	0	0	15	0.63
5228773--5228830	29	2.0	29	100	0	116	31	10	17	41	1.83
5240358--5240531	94	1.9	92	86	2	249	34	10	12	42	1.77
5251101--5251140	19	2.2	18	86	13	55	37	0	7	55	1.29
5267287--5267332	22	2.0	24	91	8	78	56	17	2	23	1.52
5269927--5270011	41	2.1	40	84	6	109	40	10	23	25	1.87
5276105--5276531	213	2.0	213	94	0	755	28	16	21	33	1.95
5277284--5277406	61	2.0	61	93	3	212	34	15	8	41	1.78
5282414--5282453	21	1.9	21	89	0	62	27	5	25	42	1.75
5289769--5289794	13	2.0	13	100	0	52	38	0	0	61	0.96
5294619--5294666	22	2.1	22	88	3	69	56	0	0	43	0.99
5294798--5294839	22	1.9	22	90	0	66	45	2	0	52	1.13
5297676--5297833	79	2.0	79	86	4	221	30	28	13	27	1.94
5297971--5298054	44	1.9	44	100	0	168	30	19	16	33	1.94
5310228--5310284	2	28.5	2	78	0	51	47	8	3	40	1.52
5310228--5310284	12	4.8	12	82	0	69	47	8	3	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5311827--5311854	2	14.0	2	100	0	56	50	0	50	0	1.00
5323203--5323245	14	3.1	13	78	15	50	51	4	0	44	1.22
5324255--5324291	2	18.5	2	100	0	74	51	0	0	48	1.00
5326921--5326960	16	2.3	19	87	12	59	65	0	0	35	0.93
5330807--5330831	11	2.3	11	100	0	50	92	0	8	0	0.40
5331079--5331114	12	3.0	12	91	0	54	38	0	61	0	0.96
5331084--5331121	4	9.5	4	94	0	58	44	0	55	0	0.99
5338735--5338773	6	6.5	6	96	0	60	5	17	30	46	1.70
5343033--5343075	16	2.7	15	79	10	50	46	0	0	53	1.00
5352693--5352746	21	2.5	22	81	3	65	22	7	20	50	1.73

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