genome.fa.s8.2.7.7.80.10.50.1000.11.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_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

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

This is table  11  of  19  ( 2280 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)
4192682--4192746	33	2.0	33	93	0	112	46	4	10	38	1.60
4200120--4200150	2	15.5	2	100	0	62	51	0	0	48	1.00
4218652--4218687	2	18.0	2	88	0	54	50	2	2	44	1.31
4241269--4241304	18	2.0	18	88	0	54	38	0	0	61	0.96
4241390--4241438	25	2.0	25	84	8	64	36	2	4	57	1.30
4241843--4241872	2	15.0	2	100	0	60	50	0	0	50	1.00
4241883--4241922	2	20.0	2	100	0	80	50	0	0	50	1.00
4248886--4248940	28	2.0	28	92	0	92	61	12	1	23	1.40
4249467--4249516	18	2.8	18	77	19	52	58	0	0	42	0.98
4259633--4259710	30	2.7	30	88	7	108	56	1	1	41	1.15
4265510--4265557	19	2.5	19	79	3	51	47	2	2	47	1.25
4268192--4268218	2	13.5	2	100	0	54	51	0	0	48	1.00
4272213--4272250	20	1.9	20	94	0	67	42	18	23	15	1.89
4277364--4277455	43	2.1	46	88	10	138	4	57	21	16	1.56
4283052--4283090	2	19.5	2	100	0	78	51	0	0	48	1.00
4289106--4289149	19	2.2	20	88	4	63	34	18	13	34	1.90
4292891--4292921	2	15.5	2	100	0	62	48	0	51	0	1.00
4294485--4294670	92	2.0	92	96	0	345	31	19	18	29	1.96
4303331--4303364	16	2.1	16	100	0	68	50	5	17	26	1.69
4305579--4305646	35	1.9	35	85	5	93	42	4	32	20	1.72
4306283--4306362	40	2.0	39	83	7	99	31	3	2	62	1.26
4307485--4307597	46	2.5	46	75	13	115	49	9	6	34	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4309074--4309117	2	22.0	2	100	0	88	50	0	0	50	1.00
4313502--4313528	14	1.9	14	100	0	54	48	14	0	37	1.45
4314712--4314745	17	2.0	17	94	0	59	52	14	11	20	1.73
4325681--4325722	16	2.6	16	84	0	57	33	4	0	61	1.17
4325872--4325922	26	2.0	26	84	7	68	49	11	7	31	1.68
4325955--4326018	29	2.2	30	88	2	94	43	9	7	39	1.66
4333706--4334039	33	10.4	32	68	21	120	31	1	0	66	1.03
4333704--4334039	114	3.0	113	82	8	384	31	1	0	66	1.04
4333730--4334039	84	3.7	82	72	18	217	31	1	0	66	1.04
4333888--4334036	7	20.4	7	70	21	69	30	0	0	69	0.94
4333946--4334040	5	19.4	5	67	16	56	28	1	0	70	0.94
4333774--4334002	28	7.6	30	67	21	90	31	1	0	66	1.08
4333892--4334031	26	5.6	26	72	15	75	30	0	0	69	0.94
4333911--4334030	50	2.4	51	77	16	144	30	0	0	69	0.95
4333932--4334043	26	4.1	26	71	18	102	30	0	0	68	0.95
4333911--4334067	78	2.0	80	80	9	180	33	1	0	65	1.01
4335291--4335326	2	18.0	2	88	0	54	50	5	0	44	1.25
4341675--4341724	22	2.3	22	92	0	82	42	2	8	48	1.44
4343134--4343166	5	6.8	5	86	6	50	78	3	18	0	0.87
4351534--4351573	2	20.0	2	100	0	80	0	50	0	50	1.00
4368603--4368654	25	2.1	25	96	0	95	42	3	15	38	1.65
4377169--4377201	4	8.5	4	93	6	59	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4394698--4394734	18	2.0	20	89	10	60	54	0	0	45	1.00
4396380--4396404	2	12.5	2	100	0	50	52	0	48	0	1.00
4404777--4404801	10	2.5	10	100	0	50	0	0	8	92	0.40
4417555--4417691	70	2.0	70	89	0	211	32	17	11	37	1.86
4418892--4418918	2	13.5	2	100	0	54	0	51	0	48	1.00
4445806--4445893	35	2.5	35	83	7	99	19	14	19	46	1.84
4449323--4449360	2	19.0	2	88	0	58	52	2	0	44	1.14
4458646--4458678	2	16.5	2	100	0	66	0	51	0	48	1.00
4459535--4459576	17	2.4	18	76	11	52	50	2	4	42	1.36
4459950--4460020	36	2.0	36	83	10	92	46	0	5	47	1.26
4459945--4460013	23	3.0	21	77	10	66	50	0	4	44	1.21
4461701--4461963	135	2.0	132	82	5	321	37	7	4	50	1.50
4462013--4462052	19	2.2	19	86	8	57	47	7	0	45	1.31
4463435--4463491	7	7.1	8	74	21	57	36	1	0	61	1.07
4465794--4465833	21	2.0	21	90	5	64	42	0	0	57	0.98
4465827--4465884	30	1.9	30	89	0	89	32	12	5	50	1.62
4466500--4466537	20	2.0	20	84	5	51	42	10	2	44	1.52
4467274--4467304	2	15.5	2	100	0	62	51	0	0	48	1.00
4467304--4467330	2	13.5	2	100	0	54	51	0	48	0	1.00
4468780--4468826	22	2.1	22	84	7	60	38	2	8	51	1.45
4469512--4469590	40	2.0	40	97	0	149	26	12	12	48	1.77
4471182--4471236	22	2.5	22	82	5	67	7	12	5	74	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4474515--4474642	64	2.0	64	96	0	238	19	11	24	44	1.84
4483460--4483496	3	12.3	3	94	0	65	62	2	35	0	1.10
4485232--4485445	111	1.9	113	89	5	337	30	9	28	30	1.89
4491185--4491433	94	2.7	94	77	6	229	36	12	10	39	1.79
4493626--4493689	17	3.7	18	78	16	80	51	0	1	46	1.10
4493627--4493712	15	5.4	15	72	20	52	52	0	1	46	1.08
4493626--4493690	27	2.5	27	77	20	75	52	0	1	46	1.10
4493644--4493712	35	2.0	35	83	11	88	52	0	1	46	1.09
4493961--4494001	19	2.1	20	82	13	50	39	0	2	58	1.11
4493939--4494000	28	2.2	28	80	11	74	37	1	1	59	1.17
4499826--4499865	2	20.0	2	89	0	62	47	2	2	47	1.29
4500744--4500789	21	2.1	22	92	8	76	58	0	0	41	0.98
4509155--4509205	15	3.3	15	76	10	57	72	1	0	25	0.95
4509152--4509209	16	3.6	16	75	9	55	72	1	0	25	0.94
4509152--4509205	27	2.0	27	82	3	65	72	1	0	25	0.95
4509322--4509374	27	2.0	26	85	3	70	49	5	0	45	1.26
4509373--4509457	42	2.0	41	80	13	93	44	1	1	52	1.16
4509714--4509744	16	1.9	16	93	0	53	54	0	0	45	0.99
4514752--4514786	11	3.0	12	83	8	54	37	0	0	62	0.95
4514752--4514802	23	2.2	23	82	6	59	43	0	0	56	0.99
4515641--4515677	15	2.2	18	86	13	53	37	0	0	62	0.96
4518655--4518681	3	9.0	3	100	0	54	66	33	0	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4522821--4522851	2	15.5	2	100	0	62	51	0	0	48	1.00
4561847--4561888	19	2.2	20	82	4	50	33	2	4	59	1.31
4564587--4564614	7	4.0	7	100	0	56	28	0	28	42	1.56
4567922--4567952	2	15.5	2	100	0	62	51	48	0	0	1.00
4572042--4572070	2	14.5	2	100	0	58	0	48	0	51	1.00
4583808--4583875	18	4.1	18	66	24	51	52	0	0	47	1.00
4583777--4583841	23	2.9	23	82	8	73	46	0	0	53	1.00
4590960--4590991	5	6.6	5	92	7	57	21	37	0	40	1.54
4594870--4594908	2	21.5	2	80	19	50	51	0	0	48	1.00
4626797--4626826	2	15.0	2	100	0	60	50	0	0	50	1.00
4628601--4628685	42	2.0	42	100	0	170	42	2	18	36	1.64
4630170--4630198	11	2.6	11	100	0	58	68	13	10	6	1.37
4632645--4632682	19	2.0	19	85	10	51	36	5	2	55	1.37
4655978--4656010	17	1.9	17	93	0	57	57	6	9	27	1.53
4656075--4656177	47	2.2	47	96	0	188	49	6	11	32	1.65
4680838--4680864	12	2.2	12	100	0	54	29	25	0	44	1.54
4681185--4681236	25	2.0	25	85	3	68	55	0	0	44	0.99
4690000--4690081	31	2.8	29	75	12	78	35	0	1	63	1.02
4690115--4690158	18	2.4	18	92	0	79	31	15	20	31	1.94
4698737--4698761	13	1.9	13	100	0	50	40	8	8	44	1.63
4700428--4700468	15	2.7	15	80	0	55	48	0	2	48	1.14
4709940--4709976	2	18.5	2	100	0	74	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4710792--4710948	77	2.0	77	93	0	269	27	14	22	35	1.93
4711259--4711288	14	2.1	14	100	0	60	66	0	13	20	1.24
4733794--4733827	6	5.7	6	96	0	50	23	0	8	67	1.18
4757220--4757244	2	12.5	2	100	0	50	52	0	0	48	1.00
4762223--4762586	55	6.6	55	72	10	174	42	9	7	40	1.67
4762309--4762598	110	2.6	110	79	3	253	42	10	7	39	1.67
4762381--4762672	110	2.7	110	80	4	275	43	11	8	35	1.72
4762233--4762629	55	7.2	54	73	7	172	43	10	8	38	1.69
4762233--4762669	165	2.6	164	76	6	416	42	10	8	37	1.70
4767391--4767436	25	1.9	23	90	4	65	47	13	8	30	1.72

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