genome.fa.s4.2.7.7.80.10.50.1000.13.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  13  of  26  ( 3073 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)
4706027--4706051	10	2.5	10	100	0	50	72	8	0	20	1.10
4718111--4718199	39	2.4	37	77	7	97	43	21	15	19	1.87
4719086--4719132	19	2.4	20	75	10	53	19	8	12	59	1.58
4726070--4726117	22	2.2	22	82	14	55	47	2	0	50	1.12
4727614--4727681	27	2.6	26	75	11	68	47	0	4	48	1.22
4727738--4727791	24	2.3	23	76	20	58	46	0	5	48	1.25
4738395--4738566	79	2.2	80	91	1	283	44	8	10	37	1.69
4738395--4738644	79	3.2	79	83	5	281	42	8	9	39	1.68
4738895--4738939	18	2.6	18	89	3	65	35	6	28	28	1.83
4738980--4739269	22	13.1	22	99	0	562	28	22	31	17	1.97
4739284--4739411	61	2.1	63	91	2	206	51	13	11	23	1.73
4744107--4744935	30	27.8	30	75	7	522	24	7	40	27	1.81
4744127--4744227	27	3.5	27	77	15	121	25	7	45	20	1.78
4744101--4744935	60	14.0	60	84	5	656	24	7	40	27	1.81
4744104--4744935	90	9.3	90	76	6	648	24	7	40	27	1.81
4757855--4757893	15	2.7	14	84	7	51	58	2	25	12	1.47
4759834--4759946	36	3.2	36	76	6	106	25	3	46	23	1.68
4759901--4759992	48	1.9	48	88	0	139	23	2	52	21	1.58
4759863--4759961	36	2.5	41	73	19	100	23	2	50	24	1.60
4759910--4760067	75	2.1	75	85	2	210	25	3	49	20	1.66
4767071--4767109	2	19.5	2	100	0	78	51	48	0	0	1.00
4781952--4781990	18	2.0	20	85	9	55	10	12	10	66	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4786412--4786442	2	15.5	2	93	0	53	48	3	0	48	1.17
4786672--4786742	15	4.5	15	75	16	63	67	2	0	29	1.05
4786677--4786743	32	2.1	33	83	8	84	70	2	0	26	1.02
4789933--4790293	180	2.0	180	95	0	641	35	17	15	31	1.91
4792161--4792224	32	2.0	32	96	0	119	45	12	17	25	1.83
4794671--4794709	20	2.0	20	90	10	62	2	7	12	76	1.09
4795436--4795464	8	3.6	8	100	0	58	75	0	0	24	0.80
4797666--4797719	25	2.0	27	86	10	76	48	5	18	27	1.70
4799165--4799201	18	2.1	17	90	5	56	59	2	24	13	1.47
4803404--4803460	30	1.9	29	85	3	78	35	0	0	64	0.93
4828290--4828332	5	8.6	5	82	7	52	16	2	4	76	1.05
4828456--4828490	4	8.5	4	90	3	52	77	2	0	20	0.90
4832389--4832445	27	2.2	26	84	9	71	10	22	8	57	1.59
4835351--4835381	15	2.1	15	93	0	53	25	0	12	61	1.32
4838148--4838204	29	1.9	29	89	3	87	43	3	3	49	1.36
4840070--4840102	17	1.9	17	93	0	57	15	24	30	30	1.95
4844248--4844295	23	2.1	23	100	0	96	52	25	18	4	1.63
4866195--4866234	14	2.9	14	92	3	64	7	32	15	45	1.74
4877301--4877360	31	2.0	31	87	9	88	41	5	21	31	1.75
4884515--4884555	20	2.1	20	90	4	66	29	0	4	65	1.13
4886454--4886508	29	1.9	28	88	3	83	43	16	16	23	1.87
4890190--4890224	18	2.0	17	88	5	52	37	22	8	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4898073--4898210	69	2.0	69	91	0	222	34	11	17	36	1.86
4898636--4898716	41	2.0	41	85	0	108	35	8	13	41	1.75
4906173--4906218	15	3.1	15	75	12	58	36	4	19	39	1.72
4906557--4906605	14	3.4	14	75	5	53	44	0	2	53	1.12
4906666--4906710	6	8.0	6	80	9	51	2	17	2	77	0.97
4914351--4914378	9	3.1	9	100	0	56	35	0	0	64	0.94
4914486--4914518	16	2.1	16	94	0	57	0	33	0	66	0.92
4914488--4914527	18	2.2	19	90	4	64	2	27	0	70	1.01
4915155--4915202	23	2.2	21	82	14	53	62	2	2	33	1.18
4918946--4919026	38	2.1	38	88	0	117	40	12	8	38	1.74
4919244--4919320	29	2.7	29	93	0	127	36	23	10	29	1.88
4919844--4919940	30	3.3	30	84	7	110	59	5	3	31	1.35
4930699--4930741	3	14.3	3	92	0	68	2	34	0	62	1.08
4931306--4931366	32	1.9	31	83	3	77	34	0	0	65	0.93
4945598--4945637	3	13.3	3	94	0	71	65	0	2	32	1.06
4954620--4954663	22	1.9	24	86	9	65	29	15	20	34	1.94
4955138--4955204	20	3.2	20	79	10	64	10	17	7	64	1.47
4960208--4960251	7	6.3	7	87	7	63	72	0	0	27	0.85
4960208--4960251	15	3.1	14	87	9	63	72	0	0	27	0.85
4960207--4960271	21	3.1	21	82	8	71	67	1	1	29	1.09
4960208--4960259	22	2.4	21	84	15	70	71	0	0	28	0.87
4972433--4972457	3	8.3	3	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4980713--4980751	2	19.5	2	89	0	60	48	5	0	46	1.24
4981890--4981920	15	2.1	15	93	0	53	22	0	9	67	1.19
4983799--4984246	224	2.0	224	97	0	851	36	13	18	32	1.89
4984880--4985071	105	1.8	105	86	2	278	24	18	12	44	1.85
4986928--4986994	26	2.5	27	78	4	73	26	16	34	22	1.95
4991992--4992044	27	1.9	28	85	11	74	45	9	32	13	1.75
5000105--5000131	2	13.5	2	100	0	54	48	0	0	51	1.00
5002088--5002175	39	2.3	39	85	0	113	29	5	17	47	1.70
5002109--5002192	39	2.2	39	84	0	105	30	5	15	47	1.69
5003204--5003359	39	4.0	39	76	3	125	49	14	2	33	1.57
5013193--5013313	61	2.0	61	95	0	215	28	27	13	31	1.94
5016792--5016847	27	2.1	27	100	0	112	57	3	3	35	1.34
5020159--5020192	16	2.1	16	88	0	50	67	2	0	29	1.05
5022550--5022580	9	3.6	9	95	4	55	35	6	9	48	1.62
5022558--5022616	22	2.7	22	82	15	77	38	5	6	49	1.52
5022550--5022649	52	1.9	52	84	11	125	37	8	6	49	1.57
5034798--5034852	21	2.6	21	85	0	74	41	7	3	47	1.49
5035630--5035685	27	2.0	28	86	3	78	42	0	3	53	1.18
5035703--5035761	28	2.2	26	81	6	64	42	0	0	57	0.98
5035688--5035763	39	1.9	40	91	2	127	40	0	0	59	0.98
5035700--5035781	39	2.0	39	86	9	110	41	0	3	54	1.18
5041260--5041305	21	2.3	20	79	17	51	6	10	4	78	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5047589--5047645	26	2.1	28	83	6	73	33	3	1	61	1.23
5052057--5052092	2	19.0	2	88	11	58	47	0	0	52	1.00
5053440--5053480	2	20.5	2	87	0	55	48	2	4	43	1.37
5053487--5053520	3	11.3	3	100	0	68	32	0	35	32	1.58
5055060--5055089	7	4.3	7	100	0	60	30	16	13	40	1.87
5055664--5055717	26	2.1	26	100	0	108	42	11	16	29	1.83
5061067--5061110	2	22.0	2	100	0	88	50	0	0	50	1.00
5061691--5061731	16	2.6	16	92	7	66	36	0	4	58	1.20
5061707--5061764	24	2.5	24	88	2	82	43	0	1	55	1.10
5064233--5064273	16	2.6	16	88	7	57	36	2	4	56	1.34
5077848--5077885	17	2.1	18	85	9	51	73	0	26	0	0.83
5077870--5078262	132	3.0	132	93	0	680	34	12	22	30	1.91
5078455--5078819	187	2.0	187	85	3	493	15	16	23	44	1.86
5085026--5085100	35	2.2	34	80	7	80	10	21	8	60	1.55
5086516--5086547	11	2.9	11	95	0	55	46	6	6	40	1.54
5088742--5088790	16	3.0	15	82	14	53	48	0	0	51	1.00
5088767--5088844	30	2.7	29	84	7	104	60	0	0	39	0.97
5088782--5088826	21	2.1	22	83	4	56	66	0	0	33	0.92
5089416--5089468	11	4.9	11	75	11	56	26	0	0	73	0.83
5089416--5089468	22	2.5	22	90	9	83	26	0	0	73	0.83
5090943--5091008	22	3.0	22	95	0	114	24	25	30	19	1.98
5092508--5092537	3	10.0	3	100	0	60	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5098388--5098515	64	2.0	64	83	3	159	42	12	3	40	1.61
5098884--5098917	14	2.2	16	90	10	54	58	5	0	35	1.22
5099961--5100197	77	3.0	78	82	8	273	35	11	18	35	1.86
5099959--5100197	81	3.0	78	81	9	261	35	11	17	34	1.86
5100542--5100719	89	2.0	90	86	3	252	28	12	22	36	1.90
5108591--5108665	38	2.0	38	94	0	132	18	18	13	49	1.79
5114736--5115026	162	1.8	161	92	0	492	18	24	14	42	1.88
5115603--5115817	107	2.0	107	95	0	385	36	8	20	34	1.84
5126807--5126837	2	15.5	2	100	0	62	48	0	0	51	1.00
5127355--5127607	95	2.7	96	85	6	345	32	13	8	44	1.75

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26