genome.fa.s10.2.7.7.80.10.50.1000.11.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_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  11  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)
5223709--5223764	26	2.2	25	87	6	85	39	7	5	48	1.54
5224894--5224987	30	3.2	30	76	7	84	29	26	29	13	1.94
5227419--5227506	44	2.0	44	93	4	151	35	29	14	20	1.93
5234288--5234329	21	2.0	21	100	0	84	42	23	14	19	1.87
5235379--5235414	18	1.9	19	88	5	56	44	5	16	33	1.71
5254047--5254162	25	4.6	25	79	0	106	23	11	23	42	1.86
5254078--5254187	50	2.2	50	81	0	121	22	10	25	40	1.86
5257661--5257789	47	2.7	47	86	2	170	34	15	20	29	1.93
5258001--5258231	84	2.9	79	81	5	259	24	15	22	37	1.93
5258088--5258231	77	1.9	77	86	0	207	24	17	22	36	1.95
5260383--5260486	23	4.5	23	79	4	111	25	13	24	37	1.91
5260383--5260550	69	2.4	69	80	0	183	25	13	21	39	1.90
5260422--5260528	23	4.7	23	75	4	90	26	13	19	41	1.88
5260491--5260550	23	2.6	23	78	5	59	28	13	16	41	1.86
5268184--5268253	32	2.2	32	92	0	122	34	21	28	15	1.94
5273958--5273995	16	2.4	16	100	0	76	26	13	23	36	1.91
5288678--5288718	19	2.2	19	86	0	55	56	0	0	43	0.99
5289843--5289917	4	19.5	4	72	8	50	64	0	36	0	0.94
5289849--5289892	16	2.7	16	85	3	61	61	0	38	0	0.96
5289845--5289917	33	2.3	32	79	9	87	64	0	35	0	0.94
5290182--5290227	22	2.0	22	84	12	58	34	4	32	28	1.77
5299710--5299734	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5301836--5301902	33	2.0	33	85	0	89	32	13	19	34	1.91
5307665--5307690	8	3.2	8	100	0	52	34	0	0	65	0.93
5307440--5308041	236	2.6	233	80	4	650	40	7	7	44	1.61
5308362--5308411	13	3.8	13	92	5	75	28	0	0	72	0.86
5315764--5315804	6	7.2	6	83	10	59	2	31	0	65	1.05
5315761--5315804	17	2.6	17	96	0	79	4	31	0	63	1.14
5340687--5341476	171	4.6	170	82	3	868	34	13	13	38	1.85
5340687--5341476	344	2.3	343	82	3	964	34	13	13	38	1.85
5341577--5342213	340	1.9	340	83	4	829	34	14	12	38	1.84
5341577--5342384	340	2.4	338	79	7	823	35	14	13	37	1.85
5341577--5342452	171	5.1	168	74	9	708	35	14	12	37	1.85
5346981--5347011	16	1.9	16	100	0	62	22	12	0	64	1.27
5350867--5350957	15	5.9	15	67	22	55	45	8	40	5	1.58
5350852--5350911	31	1.9	31	96	0	111	43	10	43	3	1.54
5353734--5353831	46	2.1	46	90	0	151	31	11	18	38	1.86
5356963--5357012	18	2.9	18	82	5	59	20	4	12	64	1.43
5358913--5358939	2	13.5	2	100	0	54	51	48	0	0	1.00
5362587--5362615	2	14.5	2	100	0	58	51	0	0	48	1.00
5366729--5366774	2	23.0	2	86	0	65	0	47	2	50	1.13
5367548--5368743	594	2.0	596	89	1	1810	28	14	19	38	1.90
5372112--5372156	3	15.0	3	100	0	90	66	0	0	33	0.92
5379131--5379350	76	2.9	76	81	6	239	29	16	23	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5383603--5383708	31	3.4	31	85	0	140	34	16	15	33	1.90
5383724--5383892	87	1.9	87	86	2	241	32	23	12	31	1.92
5383724--5383911	87	2.2	87	84	5	238	32	22	13	30	1.93
5384471--5384579	23	4.7	23	79	6	85	26	32	14	26	1.95
5384492--5384581	23	3.9	23	79	5	92	28	33	12	25	1.92
5384494--5384581	46	1.9	46	88	0	131	29	32	12	25	1.92
5384609--5384664	23	2.4	23	84	0	67	21	37	10	30	1.87
5384500--5384760	103	2.6	103	76	5	262	26	32	12	27	1.93
5384707--5384782	23	3.3	22	83	3	80	25	26	15	32	1.95
5384879--5384948	23	3.0	23	95	0	122	25	35	12	25	1.92
5386729--5386772	2	22.5	2	86	4	63	47	2	0	50	1.13
5389171--5389208	16	2.3	17	81	4	51	73	0	10	15	1.09
5410732--5410794	16	3.8	16	78	14	58	31	0	1	66	1.01
5411384--5411490	51	2.1	51	87	0	151	27	22	13	37	1.91
5411464--5411522	22	2.7	22	94	0	100	33	23	13	28	1.93
5411568--5411615	18	2.7	18	87	6	62	25	27	12	35	1.92
5411890--5412092	79	2.5	80	88	5	277	41	8	11	38	1.71
5412423--5412548	33	4.1	32	78	16	126	47	11	11	29	1.75
5412423--5412548	61	2.1	61	86	3	173	47	11	11	29	1.75
5413054--5413144	38	2.4	38	84	0	110	28	25	13	32	1.93
5413312--5413438	66	1.9	66	86	0	182	21	16	22	39	1.92
5413421--5413606	40	4.8	40	79	10	213	27	18	15	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5413472--5413649	76	2.4	75	87	0	248	27	16	15	40	1.89
5413373--5413606	116	2.0	116	87	0	333	27	17	16	38	1.91
5417104--5417227	64	2.0	63	83	4	160	25	17	10	45	1.80
5420208--5420236	14	2.0	15	93	6	51	48	0	0	51	1.00
5429306--5429478	68	2.5	68	87	1	231	36	10	17	35	1.84
5429442--5429518	26	3.0	27	88	7	115	38	9	19	32	1.83
5432143--5432192	17	2.9	17	77	19	50	46	2	0	52	1.12
5432241--5432265	11	2.3	11	100	0	50	40	0	0	60	0.97
5433157--5433184	2	14.0	2	100	0	56	50	0	0	50	1.00
5445984--5446010	14	1.9	14	100	0	54	48	14	0	37	1.45
5455555--5455624	18	3.9	18	67	12	54	25	11	15	47	1.79
5459131--5459176	21	2.1	23	84	8	60	41	13	17	28	1.86
5459296--5459373	33	2.4	32	81	14	88	75	10	12	1	1.10
5460979--5461019	21	2.0	21	85	9	57	24	9	31	34	1.88
5461613--5461668	21	2.7	21	94	0	85	32	19	23	25	1.98
5462956--5463002	23	2.0	23	100	0	94	44	38	0	17	1.48
5464110--5464339	125	1.8	124	81	4	284	40	15	16	27	1.88
5468984--5469048	15	4.1	15	79	13	58	46	52	1	0	1.10
5469004--5469029	11	2.4	11	100	0	52	53	46	0	0	1.00
5483785--5483810	4	6.5	4	100	0	52	0	26	0	73	0.84
5485661--5485757	46	2.1	46	82	3	115	35	18	12	34	1.88
5491690--5491733	19	2.2	20	88	4	63	77	0	11	11	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5491688--5491762	20	3.6	21	74	16	66	77	0	13	9	0.99
5491731--5491760	15	1.9	15	93	6	51	80	0	13	6	0.91
5491731--5491780	16	3.1	16	83	11	57	78	0	18	4	0.91
5491739--5491778	20	2.1	19	86	13	55	82	0	15	2	0.77
5497719--5497763	15	3.1	15	83	3	56	31	0	4	64	1.13
5519908--5520280	196	1.9	196	93	1	640	31	11	14	42	1.82
5527657--5527727	34	2.1	34	82	10	83	11	8	9	70	1.34
5530625--5530837	68	3.1	68	86	1	293	31	20	8	38	1.84
5532111--5532141	16	1.9	16	93	0	53	67	16	3	12	1.35
5532640--5532740	50	2.0	50	98	0	193	17	20	3	57	1.56
5533728--5533854	64	2.0	64	80	6	141	34	15	12	37	1.86
5534044--5534103	28	2.1	28	81	6	68	26	10	18	45	1.81
5534086--5534120	18	1.9	18	88	0	52	8	20	25	45	1.79
5535403--5535521	62	1.9	62	87	3	177	32	13	5	47	1.67
5537952--5538021	17	4.1	17	69	10	54	54	1	1	42	1.18
5541662--5541690	6	5.0	6	91	8	51	82	0	17	0	0.66
5543705--5543742	19	2.0	19	94	0	67	0	34	7	57	1.28
5545806--5545840	12	2.8	13	91	4	54	31	8	28	31	1.87
5546975--5547013	20	2.0	20	89	0	60	33	15	10	41	1.81
5549082--5549120	20	2.0	20	100	0	78	35	10	17	35	1.84
5550921--5551045	64	2.0	64	93	0	214	36	21	12	29	1.90
5551737--5551767	6	5.2	6	100	0	62	67	16	0	16	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5557165--5557203	13	3.0	13	84	0	51	25	0	0	74	0.82
5557154--5557204	19	2.7	20	80	17	56	27	0	1	70	0.98
5557165--5557210	24	2.0	23	83	12	58	26	2	0	71	0.97
5565188--5565386	78	2.6	78	88	2	294	32	10	29	28	1.89
5568196--5568222	2	13.5	2	100	0	54	51	0	0	48	1.00
5569293--5569317	5	5.0	5	100	0	50	20	20	20	40	1.92
5571464--5571518	21	2.6	21	79	0	65	47	23	5	23	1.72
5574612--5574732	58	2.1	59	89	6	183	32	6	16	44	1.73
5574748--5574791	22	2.0	22	86	0	61	15	4	31	47	1.66
5574746--5574791	24	1.9	24	86	0	65	17	4	30	47	1.67

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