genome.fa.s7.2.7.7.80.10.50.1000.12.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  12  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)
4567996--4568049	29	1.9	29	85	7	76	38	3	1	55	1.28
4568015--4568214	73	2.6	76	80	14	195	31	3	1	64	1.17
4568155--4568222	15	4.4	15	70	24	52	27	1	0	70	0.96
4568071--4568219	40	3.8	39	69	21	114	29	2	0	67	1.09
4582910--4582942	2	17.0	2	87	6	50	48	0	0	51	1.00
4585992--4586024	5	7.0	5	93	6	52	0	0	15	84	0.61
4587533--4587582	12	4.2	12	78	0	55	48	18	2	32	1.59
4590246--4590301	23	2.4	23	87	3	85	35	12	3	48	1.58
4595819--4595847	2	14.5	2	100	0	58	51	0	48	0	1.00
4612358--4612413	19	2.9	19	82	12	62	33	1	0	64	1.04
4623577--4623633	28	2.0	29	89	3	89	63	1	0	35	1.05
4632910--4632963	24	2.2	24	96	0	99	24	22	16	37	1.94
4637065--4637092	2	14.0	2	100	0	56	50	0	0	50	1.00
4637784--4637824	19	2.2	18	87	12	57	48	0	0	51	1.00
4646643--4646697	20	2.6	21	82	5	67	41	0	0	58	0.98
4646621--4646702	16	4.9	16	69	20	53	45	2	1	51	1.22
4646849--4647263	214	1.9	215	83	2	539	40	7	5	46	1.55
4656316--4656449	67	2.0	67	92	0	223	26	16	17	39	1.90
4656704--4656734	16	1.9	16	93	0	53	41	6	22	29	1.78
4659155--4659198	22	2.0	22	100	0	88	27	9	22	40	1.84
4659771--4659795	3	8.3	3	100	0	50	32	0	36	32	1.58
4659817--4659843	2	13.5	2	100	0	54	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4664238--4664324	28	3.1	28	74	12	79	37	4	1	56	1.28
4667654--4667681	2	14.0	2	100	0	56	50	0	0	50	1.00
4669121--4669158	14	2.8	13	85	14	51	65	0	0	34	0.93
4669121--4669157	15	2.7	14	88	12	51	67	0	0	32	0.91
4670691--4670733	19	2.2	20	87	4	61	34	0	4	60	1.17
4673906--4673956	20	2.5	21	77	3	59	37	1	1	58	1.20
4674013--4674070	18	3.4	18	75	18	61	55	5	1	37	1.33
4674141--4674196	27	2.1	27	83	9	71	62	0	1	35	1.06
4680765--4680817	22	2.4	23	81	9	58	47	0	1	50	1.12
4683848--4683920	34	2.1	34	85	14	98	58	12	0	28	1.34
4684090--4684122	16	2.1	17	88	11	52	45	0	3	51	1.16
4684373--4684438	23	2.9	22	76	17	62	50	0	1	48	1.10
4689695--4689913	105	2.1	105	100	0	438	31	14	5	48	1.67
4691785--4691815	2	16.0	2	93	6	55	51	0	0	48	1.00
4696422--4696451	2	15.0	2	100	0	60	50	0	0	50	1.00
4717895--4717927	5	6.6	5	100	0	66	0	39	0	60	0.97
4719043--4719160	61	1.9	61	83	11	152	35	11	16	36	1.85
4719339--4719535	45	4.4	45	73	11	149	26	14	22	36	1.93
4724190--4724302	55	2.1	55	100	0	226	27	23	14	35	1.93
4727527--4727552	2	13.0	2	100	0	52	50	0	50	0	1.00
4729068--4729169	21	4.9	21	67	16	61	43	0	0	56	0.99
4729068--4729184	42	2.8	42	77	16	127	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4729125--4729183	29	2.0	30	83	9	77	44	0	0	55	0.99
4733045--4733086	16	2.6	16	100	0	84	9	28	0	61	1.27
4739295--4739319	6	4.2	6	100	0	50	52	0	0	48	1.00
4746514--4746551	16	2.4	16	100	0	76	65	5	0	28	1.14
4747989--4748032	19	2.4	19	88	11	65	50	2	0	47	1.13
4751139--4751175	16	2.3	16	90	0	56	70	0	29	0	0.88
4767063--4767104	19	2.2	19	86	4	57	71	0	0	28	0.86
4773884--4773929	23	2.0	23	86	0	65	67	0	0	32	0.91
4773893--4773944	19	2.5	21	87	12	72	59	0	0	40	0.97
4773897--4773946	20	2.4	21	83	12	68	62	0	0	38	0.96
4773911--4773974	19	3.8	19	67	28	63	57	0	0	42	0.98
4773916--4773985	30	2.3	30	97	0	131	62	0	0	37	0.95
4774457--4774509	25	2.1	25	82	6	63	54	7	0	37	1.29
4786070--4786118	15	3.2	15	79	2	53	34	6	22	36	1.79
4786093--4786121	15	1.9	15	100	0	58	31	6	27	34	1.83
4786361--4786711	14	23.9	14	67	25	74	33	2	1	63	1.15
4786266--4786709	111	4.0	111	89	7	669	33	2	0	62	1.16
4786266--4786646	28	13.9	27	67	25	83	33	3	0	62	1.17
4786576--4786742	8	21.6	8	65	25	58	32	2	0	64	1.11
4786569--4786632	20	3.2	19	77	18	58	32	0	1	65	1.02
4786593--4786703	47	2.4	48	80	8	131	35	1	0	62	1.12
4786266--4786851	218	2.7	221	83	10	651	33	2	0	62	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4786774--4786818	22	2.0	22	83	12	56	26	2	0	71	0.98
4786675--4786829	48	3.2	47	72	18	115	29	2	0	67	1.08
4787904--4787962	28	2.1	28	90	0	91	55	0	23	20	1.43
4788501--4788529	14	2.1	14	93	6	51	44	0	0	55	0.99
4796861--4796934	38	1.9	38	88	0	112	39	12	1	47	1.49
4797119--4797181	26	2.5	25	87	5	90	31	4	7	55	1.50
4797097--4797364	25	10.3	26	72	11	120	35	5	8	50	1.58
4797267--4797371	30	3.7	29	76	11	110	35	5	7	51	1.54
4797249--4797402	27	5.6	26	72	13	103	35	7	7	50	1.57
4817549--4817675	63	2.0	64	92	1	211	47	9	16	26	1.77
4826746--4826791	21	2.2	21	84	7	58	67	2	0	30	1.03
4830406--4830434	2	14.5	2	100	0	58	48	0	0	51	1.00
4833955--4833998	2	22.0	2	90	9	72	50	0	2	47	1.13
4845135--4845168	2	17.0	2	100	0	68	50	0	0	50	1.00
4846547--4846590	18	2.4	18	76	0	52	45	11	38	4	1.61
4850327--4850358	16	2.0	16	93	0	55	65	21	0	12	1.25
4850331--4850358	8	3.5	8	100	0	56	67	21	0	10	1.20
4856187--4856217	2	15.5	2	100	0	62	0	51	0	48	1.00
4860995--4861041	2	23.5	2	95	0	85	2	48	0	48	1.13
4875697--4875731	4	9.0	4	93	6	63	51	22	0	25	1.48
4883347--4883425	8	9.6	8	69	5	50	44	8	8	37	1.67
4883346--4883424	12	5.9	14	73	19	62	43	10	8	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4883325--4883381	30	2.0	28	86	6	78	38	8	14	38	1.77
4883366--4883415	20	2.5	20	80	0	55	44	8	10	38	1.68
4883338--4883422	28	2.9	29	80	5	82	41	9	10	38	1.72
4916473--4916506	17	2.1	16	94	5	59	35	0	0	64	0.94
4927659--4927684	2	13.0	2	100	0	52	50	0	0	50	1.00
4931400--4931451	18	3.1	18	75	13	65	50	1	0	48	1.12
4931479--4931529	23	2.2	23	82	6	59	54	0	0	45	0.99
4931930--4932053	28	4.5	27	78	5	113	39	5	8	46	1.57
4931944--4932050	55	1.9	55	86	3	153	40	5	9	44	1.60
4939583--4939633	4	12.5	4	76	12	50	70	1	0	27	0.98
4939590--4939633	16	2.7	17	86	6	56	72	2	0	25	0.96
4951312--4951358	14	3.4	14	93	0	76	51	14	21	12	1.76
4968902--4968930	14	2.0	15	93	6	51	48	6	3	41	1.47
4972334--4972375	21	1.9	23	85	9	61	33	7	7	52	1.56
4982341--4982406	31	2.2	31	83	8	82	59	3	4	33	1.33
4989846--4989913	23	3.0	23	83	12	86	55	1	0	42	1.08
4989768--4990048	134	2.1	137	85	4	383	56	3	5	34	1.41
4990065--4990127	23	2.6	23	80	10	63	44	0	6	49	1.28
4991204--4991257	28	2.0	27	88	3	81	64	0	1	33	1.04
4996645--4996695	2	25.5	2	100	0	102	49	0	0	50	1.00
4998677--4998710	2	17.0	2	93	0	59	47	0	0	52	1.00
5005508--5005550	21	2.0	21	90	0	68	53	6	39	0	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5006015--5006046	16	1.9	17	93	6	57	56	12	0	31	1.37
5006063--5006107	15	2.9	16	80	3	56	60	4	6	28	1.42
5007610--5007662	21	2.6	21	79	8	65	60	3	35	0	1.15
5008715--5008883	90	1.9	90	87	4	252	53	5	37	3	1.43
5008836--5008900	27	2.4	27	72	12	62	50	7	35	6	1.56
5025744--5025835	34	2.8	32	77	6	85	55	1	2	41	1.19
5025809--5025850	19	2.2	20	91	8	70	57	0	0	42	0.99
5029777--5029846	12	5.8	12	77	0	68	21	28	37	12	1.90
5029793--5029846	24	2.2	24	93	0	90	22	31	37	9	1.86
5031804--5031833	3	10.0	3	100	0	60	33	0	0	66	0.92

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