genome.fa.s14.2.7.7.80.10.50.1000.3.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_018397267.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_204.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6982396

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1406 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)
1574572--1574613	3	14.0	3	84	0	57	64	0	33	2	1.07
1579332--1579365	2	17.0	2	100	0	68	50	0	0	50	1.00
1585291--1585340	25	2.0	25	88	0	73	30	26	14	30	1.94
1595235--1595312	32	2.5	31	81	10	86	43	2	0	53	1.14
1604241--1604299	29	2.2	26	82	11	75	32	8	16	42	1.79
1631168--1631242	35	2.1	35	97	0	141	21	28	22	28	1.99
1647884--1647931	17	3.0	17	76	14	57	41	0	0	58	0.98
1673087--1673272	93	2.0	93	94	0	327	25	24	23	26	2.00
1674830--1675070	27	8.9	27	71	8	134	16	26	24	33	1.96
1674867--1675479	27	23.1	27	75	6	297	16	28	24	30	1.96
1675190--1675383	106	1.8	106	83	4	257	17	30	23	27	1.97
1701931--1701975	22	2.0	22	86	0	63	15	13	20	51	1.76
1705979--1706109	66	2.0	65	93	1	226	28	9	15	47	1.76
1706708--1706852	5	27.4	5	66	22	50	28	1	0	69	1.01
1706710--1706860	19	8.0	19	72	15	84	29	1	0	68	1.02
1706689--1706792	17	6.4	17	72	20	80	28	0	0	69	1.01
1706713--1706854	42	3.4	42	73	17	116	28	1	0	69	1.02
1706990--1707066	14	5.8	14	73	22	58	55	0	0	44	0.99
1709261--1709294	6	5.7	6	96	0	59	17	29	14	38	1.90
1713605--1713653	26	1.9	26	83	4	64	61	2	2	34	1.19
1713686--1713725	19	2.1	19	90	0	62	65	0	0	35	0.93
1717194--1717233	21	2.0	20	85	14	55	55	10	12	22	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1721156--1721211	28	2.0	28	96	0	103	25	12	28	33	1.92
1722437--1722475	20	2.0	20	84	0	51	58	2	5	33	1.33
1724172--1724209	16	2.4	16	86	4	51	0	7	15	76	1.01
1736158--1736222	25	2.5	26	75	22	66	47	0	0	52	1.00
1756345--1756560	64	3.4	64	78	3	229	40	7	6	45	1.58
1756299--1756575	128	2.2	120	78	9	279	41	6	6	45	1.55
1758158--1758364	69	3.0	69	86	1	299	26	18	24	30	1.98
1758529--1758568	20	2.0	20	95	0	71	40	10	22	27	1.86
1759855--1759892	2	19.0	2	100	0	76	50	0	0	50	1.00
1779631--1779720	46	2.0	46	90	0	144	24	10	16	48	1.76
1782927--1782957	2	15.5	2	100	0	62	48	0	0	51	1.00
1785386--1785435	24	2.1	23	88	3	73	66	2	28	4	1.21
1788495--1788616	61	2.0	61	96	0	226	22	21	13	42	1.87
1790053--1790107	27	2.0	27	100	0	110	18	18	20	43	1.88
1790729--1790770	21	2.0	21	95	0	75	9	16	14	59	1.60
1791835--1791891	28	2.0	28	100	0	114	36	3	14	45	1.61
1794152--1794249	50	2.0	50	91	0	160	18	11	26	43	1.83
1795246--1795293	3	17.0	3	79	12	57	37	0	31	31	1.58
1795246--1795278	17	1.9	17	93	0	57	42	0	30	27	1.56
1799265--1799309	2	22.5	2	100	0	90	48	0	0	51	1.00
1805524--1805557	6	5.8	6	89	6	52	17	0	0	82	0.67
1807701--1807727	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809524--1809549	2	13.0	2	100	0	52	50	0	0	50	1.00
1810714--1811027	51	6.2	51	76	6	226	21	31	40	6	1.79
1811510--1811566	15	3.9	15	88	2	89	31	5	35	28	1.79
1811511--1811567	29	1.9	30	96	3	107	31	5	35	28	1.79
1822355--1822718	54	6.7	54	75	8	254	27	21	20	30	1.98
1831363--1831416	25	2.2	25	93	0	90	35	7	7	50	1.59
1839208--1839248	20	2.0	20	95	0	73	31	26	4	36	1.78
1839211--1839255	20	2.2	20	88	0	63	31	26	8	33	1.87
1839449--1839481	3	11.0	3	100	0	66	66	0	0	33	0.92
1862341--1862386	21	2.2	20	92	3	74	56	0	0	43	0.99
1862341--1862389	20	2.4	21	89	3	73	55	0	0	44	0.99
1864240--1864288	21	2.2	22	82	13	57	65	2	0	32	1.04
1866045--1866076	2	16.5	2	93	6	57	50	0	0	50	1.00
1866431--1866455	12	2.1	12	100	0	50	56	28	8	8	1.57
1873118--1873220	45	2.3	46	81	5	111	55	5	4	33	1.45
1882193--1882236	23	1.9	23	90	0	70	43	22	6	27	1.78
1885441--1885483	2	21.5	2	90	0	68	44	0	4	51	1.22
1895168--1895274	30	3.6	29	79	3	108	36	3	3	56	1.35
1895206--1895274	30	2.3	30	92	0	120	36	0	4	59	1.17
1898351--1898405	28	2.0	28	100	0	110	61	10	9	18	1.54
1899009--1899054	20	2.3	20	92	0	74	39	4	10	45	1.59
1899233--1899263	15	2.1	15	100	0	62	25	25	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1908159--1908217	22	2.7	22	77	15	59	27	8	15	49	1.73
1923456--1923490	2	17.5	2	100	0	70	48	0	0	51	1.00
1940220--1940338	57	2.1	57	82	6	143	29	36	15	17	1.91
1943444--1943476	2	16.5	2	100	0	66	51	0	0	48	1.00
1947599--1947647	18	2.6	20	72	21	52	46	0	0	53	1.00
1949469--1949498	2	15.0	2	92	0	51	53	0	0	46	1.00
1951802--1951962	83	1.9	83	91	0	259	32	23	16	26	1.96
1952093--1952153	19	3.1	19	72	25	54	47	0	1	50	1.10
1952093--1952173	41	2.0	41	81	13	96	49	0	1	49	1.08
1952235--1952314	26	3.1	26	82	10	94	30	0	0	70	0.88
1952246--1952303	28	2.1	28	90	3	91	31	0	0	68	0.89
1952253--1952303	15	3.5	15	78	10	52	33	0	0	66	0.92
1952230--1952305	7	11.4	7	69	16	54	31	1	0	67	0.99
1952247--1952401	26	5.8	26	73	15	111	30	3	0	66	1.07
1952246--1952317	14	5.4	14	67	21	55	29	0	0	70	0.87
1952355--1952407	13	4.1	13	77	15	56	26	0	0	73	0.83
1952340--1952388	24	2.0	25	84	11	66	30	2	0	67	1.02
1955321--1955382	29	2.1	27	82	11	70	41	0	0	58	0.98
1955315--1955382	31	2.3	30	80	12	77	41	0	0	58	0.98
1955422--1955454	11	3.1	11	95	4	59	45	0	9	45	1.35
1955555--1955611	20	3.0	20	75	12	57	49	0	0	50	1.00
1955588--1955625	18	2.2	18	86	13	53	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1961174--1961205	2	16.0	2	100	0	64	50	0	0	50	1.00
1962495--1962551	14	4.1	14	75	8	55	36	1	0	61	1.07
1963403--1963440	19	2.0	19	94	0	67	31	23	26	18	1.97
1964804--1964834	2	15.5	2	100	0	62	51	0	0	48	1.00
1984626--1984654	2	15.0	2	92	7	51	51	0	48	0	1.00
1987734--1987889	35	4.5	35	81	1	172	33	2	4	59	1.31
1987734--1987888	70	2.2	70	86	2	206	33	2	4	59	1.31
1987862--1987933	28	2.7	26	72	10	72	41	0	0	58	0.98
1991904--1991941	15	2.5	15	100	0	76	0	47	0	52	1.00
1992353--1992412	27	2.2	27	93	0	102	53	15	13	18	1.73
1997199--1997254	27	2.1	27	83	9	71	62	3	0	33	1.12
2006041--2006080	21	1.9	21	84	0	53	15	45	22	17	1.85
2020066--2020112	2	23.5	2	86	0	67	0	42	0	57	0.98
2022158--2022200	22	2.0	22	82	8	54	69	6	4	18	1.29
2030811--2030843	2	16.5	2	93	0	57	45	0	0	54	0.99
2050609--2050642	5	6.6	5	86	6	50	82	2	14	0	0.79
2050609--2050642	11	3.2	11	91	4	52	82	2	14	0	0.79
2052113--2052158	15	2.9	16	84	12	60	56	2	2	39	1.24
2052119--2052158	16	2.5	16	84	12	55	55	2	2	40	1.27
2070946--2070992	14	3.6	14	75	16	55	55	0	2	42	1.12
2072930--2073003	33	2.2	34	85	2	105	28	8	0	63	1.23
2074395--2074442	22	2.4	20	78	18	55	45	0	2	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2082292--2082324	2	16.5	2	100	0	66	0	48	0	51	1.00
2093429--2093456	14	2.0	14	100	0	56	35	7	0	57	1.26
2098524--2098569	21	2.2	21	84	0	56	30	4	15	50	1.63
2100120--2100149	15	2.0	15	100	0	60	53	0	33	13	1.40
2109446--2109524	41	1.9	41	100	0	158	49	10	12	27	1.73
2112759--2113002	135	1.8	135	81	3	312	31	20	22	26	1.98
2112759--2113030	135	2.0	135	80	4	307	31	20	22	25	1.98
2113448--2113498	23	2.2	23	92	0	84	25	9	11	52	1.68
2114560--2114615	26	2.2	26	100	0	112	32	17	16	33	1.92
2117953--2117986	16	2.1	17	94	5	61	32	0	2	64	1.08

Tables:   1   2   3   4   5   6   7   8   9   10   11   12