genome.fa.s10.2.7.7.80.10.50.1000.9.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_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8461613

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

This is table  9  of  18  ( 2155 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)
4166055--4166098	3	14.7	3	100	0	88	34	0	0	65	0.93
4166097--4166127	3	10.3	3	100	0	62	35	0	32	32	1.58
4166235--4166263	3	9.7	3	100	0	58	34	0	0	65	0.93
4166124--4166397	140	2.0	137	86	5	381	35	10	12	40	1.78
4169354--4169390	6	6.2	6	96	0	56	51	10	37	0	1.37
4173438--4173505	32	2.2	31	81	5	75	52	7	5	33	1.53
4174282--4174311	10	3.1	10	95	4	53	53	0	0	46	1.00
4175643--4175692	18	2.6	19	75	21	50	50	10	12	28	1.71
4187605--4187646	21	2.0	22	85	4	59	69	19	4	7	1.31
4203033--4203074	21	1.9	23	85	9	61	26	11	30	30	1.92
4231076--4231194	61	2.0	61	86	3	168	33	9	17	39	1.82
4231284--4231342	22	2.7	22	81	0	64	30	11	13	44	1.80
4234170--4234220	5	9.6	5	80	16	50	76	1	0	21	0.88
4234169--4234216	11	4.3	11	75	15	53	77	2	0	20	0.88
4234169--4234216	17	2.8	17	83	0	69	77	2	0	20	0.88
4234753--4234828	22	3.4	22	78	5	71	34	7	19	38	1.81
4234779--4234840	22	2.8	22	85	7	72	30	12	22	33	1.92
4234848--4234900	22	2.5	22	75	6	65	41	13	11	33	1.80
4236340--4236387	23	2.1	23	92	0	78	18	29	6	45	1.74
4245293--4245333	16	2.5	17	73	11	50	26	9	29	34	1.88
4255164--4255212	22	2.3	22	85	3	64	53	4	0	42	1.20
4255929--4255967	3	13.0	3	94	0	69	33	2	0	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4256343--4256367	13	1.9	13	100	0	50	32	20	8	40	1.81
4257734--4257758	5	5.0	5	100	0	50	0	60	0	40	0.97
4257725--4257759	12	3.1	12	84	16	56	0	57	0	42	0.99
4257734--4257767	15	2.3	15	89	0	50	0	55	2	41	1.15
4264437--4264917	249	1.9	245	83	4	617	36	9	5	48	1.58
4289719--4289755	2	18.5	2	94	0	65	51	2	0	45	1.15
4295544--4295597	18	2.9	17	81	13	54	55	0	0	44	0.99
4295546--4295600	19	2.8	20	81	8	69	56	0	0	43	0.99
4308444--4308484	21	2.0	20	85	4	55	46	0	0	53	1.00
4308437--4308492	24	2.3	23	80	14	60	44	0	0	55	0.99
4321802--4321830	15	1.9	15	100	0	58	34	6	27	31	1.83
4322050--4322106	10	5.5	10	77	8	60	29	0	0	70	0.88
4322052--4322221	22	7.9	21	68	19	93	34	1	0	63	1.09
4321974--4322309	110	3.0	111	91	7	540	33	2	0	63	1.12
4322163--4322231	21	3.4	21	81	14	76	33	0	0	66	0.92
4322135--4322273	27	5.1	26	73	17	95	35	2	1	61	1.17
4322044--4322345	9	33.2	9	62	24	59	33	2	0	63	1.12
4321974--4322340	109	3.3	109	83	8	460	33	2	0	62	1.13
4322325--4322421	23	3.8	24	72	20	72	29	2	1	67	1.09
4328681--4328760	41	2.0	41	85	9	110	35	13	22	28	1.92
4329704--4329740	5	7.4	5	100	0	74	81	0	18	0	0.70
4334852--4334999	81	1.8	79	82	2	188	43	9	5	41	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4335303--4335390	40	2.3	38	84	4	104	34	17	20	28	1.95
4336319--4336431	57	2.0	57	96	0	208	27	7	15	48	1.73
4336626--4336689	25	2.6	25	94	0	110	34	3	14	48	1.59
4336708--4336767	31	1.9	31	82	0	75	26	0	6	66	1.16
4357553--4357609	25	2.3	25	90	0	87	38	0	7	54	1.28
4362079--4362124	15	3.1	15	90	3	76	26	6	28	39	1.81
4362322--4362362	22	2.0	22	86	13	61	7	14	43	34	1.73
4367344--4367441	45	2.2	45	77	0	106	14	33	42	9	1.77
4368267--4368303	12	3.2	12	81	11	51	27	0	0	72	0.84
4391845--4392152	99	3.0	102	87	8	439	43	20	13	22	1.87
4393857--4393915	15	3.9	15	77	0	55	10	52	0	37	1.35
4393859--4393918	30	2.0	30	86	0	84	10	50	0	40	1.36
4401299--4401342	18	2.5	18	82	14	56	40	4	0	54	1.21
4427645--4427685	21	2.0	20	85	4	55	34	7	2	56	1.40
4430590--4430653	31	2.1	31	90	0	101	43	9	1	45	1.45
4439967--4440083	58	2.0	59	88	1	173	28	14	9	47	1.75
4440196--4440255	30	2.1	28	82	11	70	40	3	10	46	1.54
4440404--4440486	34	2.4	34	83	0	112	36	20	21	21	1.96
4464800--4464879	27	2.8	28	81	9	83	66	1	5	27	1.20
4467627--4467725	47	2.1	48	84	1	128	39	14	11	35	1.81
4469034--4469151	57	2.1	57	90	3	184	39	11	1	47	1.49
4473851--4473990	72	1.9	72	84	10	185	52	5	13	29	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4494276--4494318	20	2.2	20	100	0	86	44	13	11	30	1.80
4509244--4509269	2	13.0	2	100	0	52	50	0	0	50	1.00
4510654--4510680	2	13.5	2	100	0	54	48	0	0	51	1.00
4512019--4512060	21	2.0	22	85	4	59	54	0	2	42	1.13
4513322--4513438	27	4.2	27	77	8	108	29	6	10	53	1.60
4513396--4513626	26	8.6	27	69	15	104	36	9	9	45	1.69
4513852--4513895	2	22.0	2	95	0	79	47	0	2	50	1.13
4514891--4514917	8	3.4	8	100	0	54	74	0	0	25	0.83
4515199--4515225	8	3.4	8	100	0	54	25	11	22	40	1.87
4516422--4516601	5	35.4	5	65	22	56	68	0	2	28	1.08
4516416--4516483	33	2.1	33	86	10	95	69	1	1	27	1.06
4516422--4516569	48	3.0	47	77	13	140	68	0	2	27	1.07
4516437--4516495	19	3.1	19	76	16	50	71	1	1	25	1.05
4516531--4516589	23	2.5	24	78	13	70	67	0	3	28	1.06
4516516--4516663	70	2.1	70	76	9	151	65	0	4	29	1.16
4516826--4516884	15	3.9	15	80	10	75	35	18	8	37	1.81
4518842--4518878	14	2.6	14	95	0	65	21	16	8	54	1.68
4523273--4523349	39	2.0	39	94	0	136	31	15	6	46	1.71
4524874--4524898	2	12.5	2	100	0	50	52	0	0	48	1.00
4527827--4527884	30	1.9	30	89	6	91	39	6	15	37	1.74
4537187--4537248	28	2.2	29	85	8	83	50	3	6	40	1.44
4537695--4537742	20	2.4	19	82	6	51	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4537702--4537774	23	3.3	22	75	19	64	65	0	0	34	0.93
4537713--4537753	20	2.1	19	86	4	55	60	0	0	39	0.96
4539286--4539340	26	2.1	26	82	3	65	18	9	18	54	1.69
4541728--4541755	2	14.0	2	100	0	56	50	50	0	0	1.00
4542723--4542804	42	2.0	42	82	0	101	36	12	7	43	1.70
4550526--4550645	58	2.1	57	92	1	195	38	15	9	36	1.80
4557834--4557879	14	3.4	14	81	3	58	30	4	21	43	1.72
4560463--4560523	32	1.9	32	86	0	86	47	16	11	24	1.79
4563939--4563972	17	2.1	16	88	5	50	47	8	0	44	1.34
4563969--4564044	28	2.6	30	85	6	111	39	0	0	60	0.97
4564046--4564076	14	2.1	15	94	5	55	45	0	3	51	1.17
4565942--4566144	40	5.0	40	83	5	264	59	19	0	20	1.42
4566033--4566086	27	2.0	26	85	3	72	62	20	0	16	1.32
4566026--4566085	14	4.4	14	73	12	52	60	20	0	20	1.37
4569359--4569393	16	2.2	17	90	10	56	42	0	0	57	0.99
4569518--4569560	18	2.3	19	88	4	61	46	2	0	51	1.13
4577809--4577842	17	2.0	17	94	0	59	23	8	8	58	1.56
4585629--4585669	21	2.0	21	85	9	57	53	2	0	43	1.13
4586854--4586884	2	15.5	2	100	0	62	51	0	0	48	1.00
4588900--4588941	18	2.3	18	95	0	75	40	23	14	21	1.90
4591152--4591192	2	20.5	2	100	0	82	48	0	0	51	1.00
4593171--4593261	47	1.9	48	93	2	157	40	15	15	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4609673--4609906	118	2.0	118	90	0	369	28	22	11	33	1.88
4609810--4609981	86	2.0	87	97	1	328	29	24	9	37	1.86
4618492--4618621	45	2.9	45	96	0	233	18	18	14	48	1.81
4620213--4620237	2	12.5	2	100	0	50	52	0	0	48	1.00
4622374--4622453	36	2.2	36	89	6	119	36	12	28	22	1.91
4630252--4630514	146	1.8	146	85	3	377	36	14	21	28	1.92
4630252--4630561	73	4.2	73	80	4	331	36	14	21	27	1.92
4630252--4630561	146	2.1	146	81	4	367	36	14	21	27	1.92
4632172--4632208	18	2.1	18	89	0	56	72	5	21	0	1.04
4650410--4650482	20	3.7	20	75	3	58	27	1	8	63	1.31

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