genome.fa.s5.2.7.7.80.10.50.1000.4.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

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

This is table  4  of  22  ( 2636 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)
1772650--1772695	23	2.0	24	91	4	76	19	8	17	54	1.68
1774592--1774696	45	2.3	45	79	9	115	34	18	16	31	1.93
1774666--1774720	24	2.3	24	87	0	74	27	12	20	40	1.88
1787494--1787579	42	2.0	43	86	2	120	36	19	10	33	1.86
1788714--1788759	2	23.0	2	100	0	92	50	0	0	50	1.00
1790462--1790513	25	2.1	25	92	0	86	32	15	19	32	1.93
1803383--1803446	19	3.2	21	77	18	57	34	0	1	64	1.03
1803920--1803967	22	2.2	22	84	0	60	47	6	4	41	1.48
1805667--1805734	33	2.1	33	85	0	91	33	45	8	11	1.72
1811905--1811930	2	13.0	2	100	0	52	50	0	0	50	1.00
1821146--1821231	41	2.1	41	86	4	120	41	0	15	43	1.46
1822096--1822160	13	4.9	13	76	10	60	53	1	0	44	1.09
1822105--1822167	28	2.3	27	86	7	92	53	1	0	44	1.10
1826154--1826211	27	2.2	27	84	6	75	53	0	0	46	1.00
1827118--1827154	6	6.2	6	100	0	74	48	35	16	0	1.46
1831608--1831640	15	2.2	15	94	0	57	9	12	27	51	1.69
1839773--1839943	86	2.0	86	93	2	290	32	20	14	32	1.93
1842812--1842846	16	2.3	15	90	5	52	14	0	2	82	0.77
1861427--1861465	17	2.3	17	95	0	69	10	20	20	48	1.78
1863228--1863269	18	2.5	18	81	11	54	54	0	2	42	1.13
1870355--1870439	45	1.9	44	85	7	118	42	8	8	41	1.65
1873452--1873481	2	15.5	2	93	6	53	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1878192--1878270	40	2.0	40	84	0	104	40	18	16	24	1.91
1885349--1885415	29	2.4	26	72	27	66	38	1	0	59	1.06
1898042--1898086	19	2.3	20	85	11	58	57	0	0	42	0.98
1898268--1898294	2	13.5	2	100	0	54	51	0	0	48	1.00
1909975--1910027	27	2.0	27	92	0	88	50	24	11	13	1.73
1913169--1913210	13	3.2	13	86	0	57	42	4	0	52	1.22
1913176--1913234	29	2.2	25	82	11	64	42	1	3	52	1.28
1914409--1914454	17	2.7	18	76	10	51	69	6	2	21	1.22
1919783--1919817	18	2.0	18	94	5	63	45	0	5	48	1.26
1929521--1929657	57	2.4	57	92	0	229	30	32	8	27	1.87
1929554--1929644	29	3.2	28	64	14	69	30	36	5	27	1.80
1960934--1960973	15	2.8	14	88	3	53	50	0	0	50	1.00
1961044--1961083	21	2.0	19	90	9	62	42	0	2	55	1.13
1964185--1964222	2	19.0	2	100	0	76	50	0	0	50	1.00
1965140--1965171	14	2.3	14	94	0	55	46	0	53	0	1.00
1973120--1973181	30	2.0	30	81	9	72	35	3	0	61	1.12
1973134--1973200	30	2.3	29	78	12	75	40	4	0	55	1.20
1976190--1976221	16	2.0	16	93	0	55	9	12	40	37	1.75
1983969--1984018	26	1.9	26	88	8	75	60	0	6	34	1.21
1986199--1986272	38	1.9	38	100	0	148	29	22	16	31	1.96
1989556--1989620	28	2.3	28	80	15	71	66	1	1	30	1.10
1989557--1989620	29	2.2	28	81	15	76	67	1	1	29	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1989576--1989626	25	2.0	25	88	0	75	70	0	0	29	0.87
1991840--1991891	24	2.2	24	86	6	70	30	3	3	61	1.32
1999413--1999446	16	2.1	16	88	0	50	38	2	5	52	1.41
2021756--2021798	21	2.0	21	95	0	77	20	13	32	32	1.92
2029965--2029989	3	8.3	3	100	0	50	32	0	32	36	1.58
2035210--2035249	20	2.0	20	85	0	53	52	22	12	12	1.72
2043544--2043570	2	13.5	2	100	0	54	51	0	48	0	1.00
2046468--2046505	15	2.5	16	83	12	53	44	2	13	39	1.57
2046468--2046526	15	3.9	15	74	12	50	40	1	16	40	1.59
2046744--2046784	21	2.0	21	85	9	57	63	7	2	26	1.33
2046917--2046954	20	1.9	20	88	0	58	42	10	2	44	1.52
2063898--2063923	2	13.0	2	100	0	52	50	0	0	50	1.00
2076774--2076804	2	16.0	2	93	6	55	51	0	0	48	1.00
2077011--2077038	5	5.6	5	100	0	56	0	82	0	17	0.68
2080767--2080801	3	11.7	3	100	0	70	0	31	0	68	0.90
2085114--2085140	3	9.0	3	100	0	54	66	0	0	33	0.92
2095074--2095135	29	2.3	27	86	13	83	62	1	1	33	1.14
2097247--2097313	26	2.5	26	80	7	64	35	13	1	49	1.51
2111073--2111116	2	22.5	2	90	4	72	50	2	0	47	1.13
2117166--2117224	23	2.7	20	80	17	64	49	3	3	44	1.36
2117166--2117230	20	3.0	20	80	14	67	49	3	3	44	1.33
2121944--2121972	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2122048--2122079	17	1.9	17	93	6	57	65	0	0	34	0.93
2133290--2133331	9	4.7	9	96	0	75	23	11	52	11	1.71
2139823--2139864	23	1.9	21	85	9	57	38	2	0	59	1.10
2147826--2147875	24	2.1	24	88	7	75	60	0	4	36	1.16
2147883--2147921	16	2.4	17	82	8	53	33	0	0	66	0.92
2157113--2157138	3	8.7	3	100	0	52	30	0	0	69	0.89
2178712--2178810	41	2.4	41	84	1	135	40	17	3	39	1.65
2179773--2179797	4	6.2	4	100	0	50	48	0	0	52	1.00
2180897--2181007	5	22.4	5	68	17	54	26	1	0	71	1.02
2180934--2181006	7	11.3	7	74	14	59	20	0	1	78	0.83
2180925--2180993	25	2.7	25	80	10	86	24	0	1	73	0.91
2180934--2181006	32	2.3	32	92	4	121	20	0	1	78	0.83
2180890--2181004	25	4.2	26	72	22	76	26	1	0	70	1.03
2210466--2210537	28	2.6	28	95	0	126	30	0	18	51	1.46
2211011--2211092	18	4.3	18	72	22	62	45	1	3	50	1.27
2211170--2211206	17	2.4	16	86	13	51	37	0	2	59	1.12
2213229--2213277	20	2.8	16	78	21	62	34	8	16	40	1.78
2229100--2229155	18	3.3	17	80	14	62	48	39	7	5	1.54
2229127--2229156	9	3.3	9	90	0	51	50	33	13	3	1.58
2229115--2229156	18	2.3	18	91	0	66	50	35	9	4	1.56
2252915--2252988	28	2.7	27	100	0	130	29	14	0	55	1.40
2265147--2265342	81	2.4	81	80	5	207	31	13	11	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2265346--2265410	21	3.1	21	81	0	76	29	20	21	29	1.98
2271391--2271422	4	8.0	4	100	0	64	50	25	0	25	1.50
2274639--2274712	30	2.5	30	88	2	105	17	16	56	9	1.65
2275130--2275174	22	2.0	22	86	8	63	13	13	4	68	1.35
2290860--2290909	15	3.2	16	75	8	50	74	2	2	22	1.03
2294885--2294958	25	3.0	25	73	11	71	48	0	0	51	1.00
2294913--2294954	21	2.0	21	81	9	50	47	0	0	52	1.00
2294919--2294968	21	2.3	21	86	10	66	42	0	0	58	0.98
2297412--2297489	40	2.0	39	85	12	106	51	6	10	32	1.61
2297963--2298046	42	2.0	43	83	6	109	54	7	8	29	1.57
2303745--2303795	26	1.9	27	88	4	77	29	35	7	27	1.85
2320752--2320784	11	2.8	12	86	9	50	33	0	0	66	0.92
2329329--2329397	31	2.2	32	85	10	99	36	0	0	63	0.94
2329350--2329398	15	3.2	15	81	13	64	36	0	0	63	0.95
2330262--2330291	15	2.0	15	93	0	51	30	6	10	53	1.60
2340225--2340281	15	3.8	15	88	4	80	36	8	21	33	1.84
2340225--2340281	30	1.9	30	89	7	89	36	8	21	33	1.84
2340498--2340569	19	3.7	19	72	15	58	34	0	0	65	0.93
2340694--2340868	84	2.1	81	76	16	182	34	1	0	64	1.04
2340427--2341079	110	6.0	111	88	8	947	34	2	0	62	1.11
2340491--2340918	43	10.2	43	67	23	163	34	1	0	63	1.05
2340935--2341005	23	3.1	24	79	18	89	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2340933--2341027	46	2.1	45	84	11	122	34	1	0	64	1.01
2341035--2341077	21	2.0	21	86	4	59	32	0	0	67	0.91
2341107--2341175	25	2.8	25	77	18	72	27	1	0	71	0.95
2341117--2341189	17	4.3	18	67	24	59	31	1	0	67	1.00
2364365--2364403	21	2.0	21	90	10	64	23	12	56	7	1.62
2364999--2365032	15	2.3	15	90	10	52	47	2	0	50	1.16
2381438--2381477	20	2.0	20	100	0	80	35	10	35	20	1.86
2389154--2389205	11	4.8	11	83	2	61	30	7	1	59	1.36
2390322--2390359	11	3.5	11	88	0	58	28	10	2	57	1.45
2391238--2391298	30	2.0	30	81	6	70	59	3	4	32	1.35

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