genome.fa.s15.2.7.7.80.10.50.1000.3.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1452 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)
1592701--1592730	3	10.0	3	100	0	60	33	0	0	66	0.92
1594863--1595180	158	2.0	158	93	0	546	38	10	16	34	1.83
1599173--1599202	2	15.0	2	100	0	60	50	0	0	50	1.00
1605715--1605749	18	1.9	18	88	11	54	62	0	8	28	1.24
1619753--1619802	18	2.6	19	78	18	50	38	4	18	40	1.69
1626737--1626763	9	3.0	9	100	0	54	22	66	11	0	1.22
1643779--1643832	26	2.1	26	85	0	72	38	11	9	40	1.73
1643917--1643968	22	2.4	22	96	0	95	38	13	23	25	1.91
1643921--1643975	22	2.5	22	90	0	74	38	16	20	25	1.92
1647126--1647175	7	7.1	7	90	0	55	0	20	28	52	1.47
1647135--1647181	7	6.9	7	88	11	62	0	25	29	44	1.54
1648432--1648460	5	5.8	5	100	0	58	79	0	0	20	0.74
1659239--1659264	1	26.0	1	100	0	52	0	0	100	0	0.00
1663803--1663863	29	2.0	31	81	12	74	37	0	1	60	1.07
1664377--1664435	21	2.9	21	82	9	77	50	0	1	47	1.11
1672987--1673033	2	23.5	2	91	0	76	51	44	0	4	1.21
1676535--1676568	15	2.1	17	89	10	54	11	20	5	61	1.50
1689127--1689160	2	17.0	2	93	0	59	47	2	0	50	1.16
1689419--1689484	23	3.0	23	71	22	70	42	6	4	46	1.48
1699073--1699129	29	2.0	28	96	3	105	56	1	3	38	1.27
1701367--1701408	2	21.0	2	90	0	66	50	4	0	45	1.23
1709215--1709286	31	2.3	31	92	0	117	31	25	12	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1729348--1729388	2	20.5	2	94	0	73	48	0	2	48	1.14
1736574--1736599	2	13.0	2	100	0	52	50	0	0	50	1.00
1737924--1737948	2	12.5	2	100	0	50	52	0	0	48	1.00
1751360--1751408	18	2.7	19	81	6	66	40	2	0	57	1.10
1759828--1759892	28	2.3	29	82	15	91	58	0	3	38	1.14
1759919--1759948	2	15.5	2	93	6	53	50	0	0	50	1.00
1762428--1762536	53	2.0	54	85	5	150	22	12	9	55	1.66
1769875--1769935	25	2.5	25	80	17	74	55	1	3	39	1.26
1770716--1770744	2	14.5	2	100	0	58	48	0	0	51	1.00
1775996--1776329	177	1.9	177	91	0	542	39	23	9	28	1.85
1787078--1787114	17	2.2	17	90	4	58	62	16	10	10	1.55
1795716--1795748	11	3.1	11	86	4	50	0	27	3	69	1.03
1813566--1813620	22	2.5	22	79	2	58	29	0	5	65	1.15
1813926--1813971	12	3.7	13	80	8	51	39	0	0	60	0.97
1813925--1813971	25	1.9	24	86	4	67	40	0	0	59	0.97
1814843--1814889	21	2.3	22	82	14	64	44	0	0	55	0.99
1814851--1814884	10	3.3	10	84	8	50	47	0	0	52	1.00
1825758--1825980	120	1.9	121	83	2	297	36	12	4	47	1.60
1836349--1836423	27	2.8	27	80	7	91	42	0	0	57	0.98
1837117--1837151	16	2.2	16	89	0	52	31	2	0	65	1.07
1853804--1853868	30	2.2	30	83	5	78	47	1	9	41	1.45
1854289--1854320	8	4.1	8	96	4	57	0	21	0	78	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1866964--1867004	9	4.7	9	81	6	57	51	2	2	43	1.28
1866981--1867009	15	1.9	15	100	0	58	44	0	6	48	1.29
1867434--1867473	19	2.1	19	90	0	62	35	0	0	65	0.93
1869096--1869287	103	1.9	103	89	0	303	35	16	19	28	1.93
1869448--1869482	17	2.2	17	90	10	56	85	0	2	11	0.69
1869813--1869847	3	11.7	3	100	0	70	31	0	0	68	0.90
1869805--1869850	12	3.6	13	91	8	69	30	0	2	67	1.03
1870202--1870292	41	2.2	40	88	1	128	62	0	7	29	1.23
1870481--1870522	15	2.8	15	88	0	57	33	16	7	42	1.75
1877322--1877465	78	1.8	78	96	0	270	30	8	34	27	1.86
1877160--1877636	260	1.8	260	93	0	819	33	10	29	27	1.90
1877589--1877683	47	2.0	47	100	0	190	30	4	35	29	1.77
1877634--1877793	83	1.9	84	96	1	295	29	6	34	30	1.82
1877719--1878020	155	1.9	155	91	0	487	33	10	28	28	1.90
1883253--1883332	27	3.1	25	81	18	101	36	6	0	57	1.24
1883251--1883336	12	6.5	12	73	22	66	37	5	0	56	1.23
1883276--1883308	17	1.9	17	93	0	57	39	9	0	51	1.34
1885087--1885136	22	2.3	22	79	6	57	46	0	2	52	1.12
1885798--1886026	117	2.0	117	92	0	386	33	10	15	40	1.83
1898073--1898110	20	1.9	20	94	0	67	42	0	2	55	1.14
1898074--1898124	20	2.5	20	79	20	54	45	0	1	52	1.12
1915880--1915914	16	2.2	16	94	0	61	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1941288--1941322	18	1.9	18	88	11	54	65	0	2	31	1.07
1941640--1941700	26	2.4	25	78	8	68	22	8	14	54	1.67
1942945--1942973	15	1.9	15	100	0	58	55	6	0	37	1.27
1944277--1944333	25	2.2	26	84	6	71	57	0	7	35	1.26
1947027--1947065	2	20.0	2	94	5	71	51	0	0	48	1.00
1969554--1969615	18	3.3	19	86	6	65	16	22	20	40	1.91
1969568--1969615	18	2.7	18	93	0	78	14	20	25	39	1.91
1969566--1969651	18	4.8	17	81	5	64	15	22	23	39	1.91
1971312--1971353	15	2.8	15	82	7	50	4	19	4	71	1.22
1971623--1971651	12	2.3	13	94	5	51	13	27	13	44	1.82
1979170--1979204	18	2.0	17	88	5	52	65	11	22	0	1.24
1981363--1981397	17	2.0	18	88	5	54	25	8	8	57	1.57
1982465--1982568	52	2.0	52	84	0	136	34	16	10	38	1.83
1983432--1983691	142	1.8	142	98	0	502	32	25	16	24	1.96
2000916--2000954	21	1.9	20	84	5	51	48	5	2	43	1.38
2001100--2001140	16	2.6	16	80	0	55	53	0	0	46	1.00
2001097--2001137	14	3.1	14	75	10	50	51	0	0	48	1.00
2007874--2007960	45	1.9	45	88	0	129	26	22	16	34	1.95
2014313--2014342	14	2.1	14	93	0	51	60	6	16	16	1.56
2021687--2021769	34	2.4	35	87	2	123	30	10	8	50	1.67
2024440--2024481	2	21.0	2	95	0	75	50	2	0	47	1.14
2041798--2041827	11	2.6	11	94	5	51	0	13	0	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2041798--2041886	10	8.9	10	69	8	56	2	17	2	77	0.98
2044008--2044047	21	2.0	21	90	5	64	55	0	27	17	1.43
2069022--2069058	18	2.1	18	89	0	56	8	54	5	32	1.53
2069245--2069280	16	2.2	16	95	0	63	0	41	0	58	0.98
2069756--2069780	4	6.2	4	100	0	50	0	0	52	48	1.00
2072834--2072876	13	3.4	13	77	6	52	4	13	4	76	1.10
2082833--2082916	43	2.0	43	97	2	161	26	19	16	38	1.92
2096604--2096631	14	2.0	14	100	0	56	21	35	28	14	1.92
2096657--2096714	27	2.1	27	96	0	107	25	32	29	12	1.92
2096765--2096822	15	3.9	15	88	4	91	29	5	34	31	1.79
2096766--2096822	29	1.9	30	92	3	98	29	5	35	29	1.79
2111114--2111153	9	4.2	9	81	12	53	82	2	2	12	0.87
2111476--2111584	57	1.9	57	88	3	166	27	18	1	52	1.56
2124798--2125199	200	2.0	201	95	1	727	31	24	13	30	1.93
2129832--2129858	2	13.5	2	100	0	54	48	0	0	51	1.00
2140999--2141029	14	2.2	14	94	0	53	41	0	3	54	1.16
2140999--2141040	14	3.0	14	86	6	50	45	0	2	52	1.13
2142108--2142156	22	2.2	22	88	0	71	59	4	0	36	1.17
2144964--2145063	31	3.2	31	66	20	82	29	18	26	27	1.98
2144947--2146380	61	23.5	60	75	8	864	36	17	16	29	1.92
2144953--2146275	123	10.8	122	76	8	924	36	17	17	28	1.92
2144973--2145967	309	3.2	305	82	4	1131	36	17	17	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2145754--2145913	31	5.2	31	69	6	92	39	18	13	28	1.89
2145916--2146017	50	2.0	50	96	0	186	38	12	18	30	1.88
2145737--2146380	234	2.7	237	81	6	689	38	16	15	28	1.90
2154137--2154167	12	2.7	12	95	5	55	51	0	6	41	1.27
2156209--2156254	9	5.6	9	78	19	55	58	0	0	41	0.98
2156209--2156278	31	2.2	30	87	12	97	58	0	1	40	1.07
2156212--2156283	23	3.1	23	79	16	62	61	0	1	37	1.05
2156229--2156306	22	3.5	22	79	10	70	62	0	3	33	1.13
2156253--2156304	23	2.3	22	86	3	68	65	0	5	28	1.16
2170913--2170959	18	2.6	19	90	6	71	74	2	0	23	0.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13