genome.fa.s17.2.7.7.80.10.50.1000.5.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_018397270.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_55.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4719911

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  5  of  10  ( 1158 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)
1723763--1723900	35	3.9	35	75	1	123	47	15	15	21	1.82
1729818--1729851	17	2.0	17	88	11	52	47	14	0	38	1.45
1730037--1730129	29	3.2	28	83	5	123	41	10	7	39	1.68
1734991--1735055	27	2.4	26	80	14	78	41	1	3	53	1.25
1735129--1735212	26	3.1	26	74	15	80	40	0	0	59	0.97
1735148--1735211	29	2.3	28	82	12	78	40	0	0	59	0.97
1748090--1748117	11	2.5	11	100	0	56	17	32	25	25	1.97
1748711--1748780	30	2.3	30	78	9	88	37	10	4	48	1.56
1748998--1749053	29	1.9	29	85	0	76	62	1	5	30	1.28
1749290--1749323	3	11.3	3	100	0	68	67	0	0	32	0.91
1750306--1750349	22	2.0	22	81	4	52	36	2	4	56	1.32
1751436--1751480	8	5.2	9	82	12	51	33	0	0	66	0.92
1759288--1759328	2	20.5	2	84	0	55	51	7	0	41	1.30
1760098--1760233	72	1.9	71	80	10	161	35	12	19	32	1.90
1761700--1761750	25	1.9	27	88	11	79	60	5	7	25	1.47
1767541--1767576	10	3.6	10	92	0	54	77	0	0	22	0.76
1771934--1771979	21	2.2	21	88	0	65	34	0	8	56	1.30
1772624--1772660	12	3.0	13	84	15	60	40	16	43	0	1.48
1774843--1774927	36	2.4	36	79	0	89	35	25	12	25	1.92
1786835--1786883	22	2.2	22	89	7	73	20	4	12	63	1.45
1798610--1798656	2	23.5	2	100	0	94	48	0	0	51	1.00
1802332--1802375	22	2.0	22	81	4	52	47	2	2	47	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1805105--1805139	19	1.9	19	88	11	56	71	0	14	14	1.15
1805847--1805880	12	2.7	13	86	9	52	41	2	0	55	1.15
1806372--1806420	23	2.2	23	92	3	82	30	14	12	42	1.82
1806651--1806676	12	2.2	12	100	0	52	30	0	0	69	0.89
1809909--1809967	3	19.7	3	92	0	64	44	33	22	0	1.53
1816276--1816308	15	2.2	15	100	0	66	27	24	9	39	1.85
1819651--1819752	35	2.9	35	85	5	134	23	13	16	46	1.83
1820889--1820922	16	2.1	16	100	0	68	52	11	23	11	1.70
1823631--1823672	20	2.0	21	86	4	59	42	2	9	45	1.49
1834935--1834971	10	3.7	10	88	0	56	62	0	0	37	0.96
1838631--1838688	30	1.9	30	89	0	89	48	8	10	32	1.68
1839147--1839210	29	2.2	30	88	2	94	37	4	6	51	1.48
1859584--1859627	20	2.3	18	85	14	54	70	0	0	29	0.88
1860849--1860910	14	4.4	14	67	4	52	27	29	6	37	1.82
1860850--1860951	43	2.4	44	90	6	165	29	31	6	32	1.84
1860850--1860951	42	2.4	43	91	4	163	29	31	6	32	1.84
1861042--1861162	38	3.2	38	86	11	169	8	28	37	25	1.85
1863599--1863699	40	2.4	43	88	9	163	30	28	6	33	1.84
1863792--1863916	39	3.2	39	95	0	223	8	28	38	24	1.84
1870493--1870810	85	3.8	84	86	2	383	40	2	14	43	1.57
1879610--1879668	28	2.2	27	81	6	66	35	1	0	62	1.05
1879624--1879676	27	1.9	28	81	11	65	32	3	0	64	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1879871--1879960	30	3.0	29	85	6	101	64	3	2	30	1.22
1879888--1879960	30	2.4	30	88	6	103	65	2	2	28	1.20
1879888--1879973	30	2.9	30	84	6	95	62	2	2	32	1.20
1890605--1890690	25	3.4	25	67	9	75	34	11	8	45	1.70
1890585--1890688	51	2.0	51	100	0	208	32	11	9	46	1.73
1892070--1892392	27	12.1	27	67	9	171	31	23	27	16	1.96
1892070--1892314	27	9.2	26	72	5	177	30	24	29	16	1.96
1892070--1892316	53	4.6	53	79	3	246	30	24	29	16	1.96
1892070--1892316	106	2.3	105	82	4	289	30	24	29	16	1.96
1892389--1892451	28	2.3	28	81	8	76	44	23	19	12	1.85
1909292--1909331	16	2.6	15	84	7	53	75	0	25	0	0.81
1914336--1914369	2	17.0	2	87	0	50	47	2	0	50	1.16
1931624--1931685	27	2.3	27	88	2	88	46	3	11	38	1.56
1933899--1933986	43	2.0	43	95	0	158	14	6	23	54	1.64
1934454--1934647	96	2.0	98	91	2	320	21	7	18	53	1.69
1934498--1934642	49	3.0	48	65	17	120	22	7	18	51	1.72
1941176--1941222	17	2.8	17	86	0	76	57	17	12	12	1.65
1943771--1943809	18	2.2	18	95	0	69	23	12	23	41	1.88
1947708--1947915	42	4.9	42	81	4	206	45	12	15	26	1.81
1947708--1947914	84	2.5	84	82	2	254	45	12	15	26	1.82
1947700--1947948	84	2.9	84	80	4	207	45	12	16	24	1.82
1961124--1961257	67	2.0	67	97	0	250	47	9	14	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1969778--1969821	23	1.9	23	85	0	61	29	2	20	47	1.62
1971666--1971690	5	5.0	5	100	0	50	60	20	0	20	1.37
1980390--1980415	13	2.0	13	100	0	52	23	0	0	76	0.78
1986525--1986605	29	2.8	29	90	0	117	19	24	8	46	1.78
1989370--1989727	102	3.5	102	94	1	587	26	18	13	41	1.87
1990515--1990584	36	2.0	36	91	2	115	35	15	21	27	1.94
1991028--1991054	13	2.1	13	100	0	54	85	0	0	14	0.61
1993023--1993047	13	1.9	13	100	0	50	68	8	8	16	1.38
1993077--1993139	15	4.3	14	76	13	56	76	4	0	19	0.96
1993067--1993139	21	3.4	21	92	5	112	73	5	1	19	1.09
1993839--1993971	64	2.0	63	90	5	203	48	9	5	36	1.57
2001687--2001734	17	2.8	17	78	15	53	77	2	4	16	1.03
2014776--2014847	36	2.0	36	91	0	117	25	9	18	47	1.78
2015846--2015899	27	2.0	27	88	0	81	51	1	14	31	1.53
2016059--2016096	18	2.1	19	85	9	53	60	0	0	39	0.97
2017433--2017513	33	2.5	33	77	0	90	38	3	17	40	1.67
2027637--2027682	22	2.1	21	84	4	56	65	4	0	30	1.12
2036910--2036956	2	23.5	2	100	0	94	51	0	0	48	1.00
2041684--2041711	2	14.0	2	100	0	56	0	0	50	50	1.00
2048271--2048348	40	2.0	40	86	0	111	42	1	17	38	1.58
2056148--2056173	6	4.3	6	100	0	52	53	0	46	0	1.00
2057877--2057918	21	2.0	21	85	0	57	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2058108--2058135	2	14.0	2	100	0	56	50	0	0	50	1.00
2058297--2058527	84	2.8	84	82	4	268	39	4	16	38	1.69
2061009--2061060	11	4.5	11	77	17	52	23	0	5	71	1.07
2060997--2061039	19	2.4	17	92	7	68	23	0	2	74	0.93
2060997--2061041	18	2.5	17	86	10	63	24	0	2	73	0.95
2060995--2061052	29	1.9	30	82	6	73	25	0	5	68	1.10
2062686--2062715	14	2.1	14	100	0	60	26	53	6	13	1.64
2067475--2067782	170	1.8	170	84	2	422	27	18	18	35	1.94
2069089--2069186	30	3.3	30	89	0	133	30	24	14	30	1.94
2069706--2069763	26	2.2	26	87	0	80	36	25	10	27	1.89
2069790--2069878	38	2.3	38	84	3	99	30	14	17	37	1.90
2072571--2072614	23	2.0	23	86	4	63	31	18	6	43	1.76
2072554--2072614	22	2.7	23	77	7	63	27	16	9	45	1.79
2073557--2073599	16	2.6	16	75	17	52	51	0	0	48	1.00
2073981--2074005	3	8.3	3	100	0	50	32	0	0	68	0.90
2096306--2096333	13	2.2	13	100	0	56	46	32	0	21	1.52
2112383--2112433	25	2.0	25	84	0	66	56	3	3	35	1.36
2116830--2117228	205	2.0	202	86	5	554	33	16	14	35	1.90
2119267--2119321	26	2.2	25	96	3	101	7	16	21	54	1.66
2121007--2121098	30	3.0	30	70	14	80	47	14	7	30	1.71
2124406--2124438	14	2.4	14	94	0	57	21	18	15	45	1.85
2127144--2127185	21	1.9	22	90	9	68	16	23	23	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2135621--2135649	2	14.5	2	100	0	58	51	0	0	48	1.00
2152891--2152953	22	2.6	25	78	19	71	50	1	0	47	1.10
2152904--2152953	25	2.1	25	85	14	70	54	0	0	46	1.00
2155438--2155510	34	2.1	34	82	0	83	36	30	15	17	1.91
2159126--2159216	28	3.3	27	83	4	85	30	20	20	27	1.98
2159149--2159225	28	2.8	27	84	2	91	31	23	20	24	1.98
2161665--2161761	36	2.7	36	81	0	104	19	13	32	34	1.91
2164074--2164114	21	2.0	21	85	0	55	63	7	4	24	1.40
2167040--2167134	43	2.2	42	81	10	104	27	29	16	26	1.97
2167211--2167279	22	3.1	22	89	0	102	26	13	18	42	1.87

Tables:   1   2   3   4   5   6   7   8   9   10