genome.fa.s21.2.7.7.80.10.50.1000.5.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_018397274.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_228.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2969030

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 846 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)
1818708--1818758	6	8.5	6	88	0	57	0	15	33	50	1.44
1818717--1818745	15	1.9	15	100	0	58	0	6	34	58	1.25
1818723--1818758	12	3.0	12	95	0	63	0	11	33	55	1.35
1821349--1821384	18	2.0	18	100	0	72	33	27	27	11	1.91
1823014--1823065	9	5.8	9	82	8	52	1	23	44	30	1.64
1823013--1823069	18	3.2	18	75	9	62	3	22	45	28	1.69
1823383--1823417	12	2.9	12	91	0	52	0	25	34	40	1.56
1828788--1828832	2	22.5	2	86	0	63	46	4	0	48	1.22
1828788--1828832	14	3.2	14	93	0	72	46	4	0	48	1.22
1829127--1829166	9	4.3	9	84	15	55	77	0	0	22	0.77
1829124--1829166	17	2.4	19	88	11	72	76	0	0	23	0.78
1842300--1842360	18	3.4	18	77	4	61	39	13	8	39	1.74
1846634--1846658	7	3.6	7	100	0	50	72	0	0	28	0.86
1846652--1846706	22	2.5	23	82	8	69	58	0	1	40	1.09
1846690--1846731	13	3.3	13	86	3	59	71	2	4	21	1.16
1846748--1846788	21	1.9	22	90	5	66	68	0	17	14	1.22
1847829--1847884	28	2.0	27	82	3	67	57	3	0	39	1.16
1847829--1848072	122	2.1	116	82	5	283	53	3	0	38	1.23
1848094--1848143	26	2.0	24	92	7	82	52	4	0	44	1.20
1848182--1848311	16	9.4	14	70	23	98	55	0	2	42	1.12
1848331--1848357	5	5.4	5	100	0	54	81	0	0	18	0.69
1848380--1848458	41	1.9	42	84	7	108	54	0	2	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850880--1850925	19	2.4	19	85	10	58	8	2	26	63	1.35
1851915--1851962	17	2.8	17	87	3	60	50	4	4	41	1.41
1851466--1852137	290	2.3	289	88	2	967	43	5	8	42	1.58
1856795--1856824	14	2.1	14	100	0	60	33	13	13	40	1.83
1858850--1858907	22	2.6	22	100	0	116	41	3	8	46	1.51
1860292--1860329	19	2.0	19	90	10	60	23	23	0	52	1.47
1863357--1863394	20	1.9	20	94	0	67	10	18	7	63	1.50
1868404--1868447	22	2.0	21	91	4	70	65	0	27	6	1.17
1868404--1868458	22	2.5	22	82	8	67	67	0	27	5	1.12
1876130--1876182	21	2.6	21	77	14	56	64	7	0	28	1.21
1876195--1876472	137	2.0	137	90	2	434	37	13	10	38	1.79
1883031--1883326	148	2.0	148	92	2	497	27	11	25	35	1.91
1894660--1894700	22	1.9	21	85	5	55	43	7	2	46	1.44
1899565--1899696	63	2.1	64	84	2	169	31	8	1	58	1.37
1900425--1900466	22	1.9	22	85	9	59	40	0	0	59	0.97
1908145--1908209	28	2.4	28	84	7	80	32	18	20	29	1.96
1908167--1908267	28	3.6	28	73	5	78	27	17	19	34	1.95
1908171--1908293	56	2.2	56	78	5	133	30	16	19	34	1.94
1911017--1911056	18	2.3	17	86	4	53	22	0	2	75	0.93
1911023--1911059	12	2.8	14	88	8	51	24	0	2	72	0.97
1913163--1913190	2	14.0	2	100	0	56	50	0	0	50	1.00
1913593--1913910	41	7.9	41	72	9	170	24	20	13	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1913704--1913837	39	3.4	39	76	8	144	24	20	11	43	1.85
1913685--1913879	80	2.4	80	79	6	223	25	22	11	41	1.86
1914473--1914770	105	2.8	105	80	1	337	43	10	20	25	1.83
1914473--1914810	105	3.2	104	77	3	329	42	10	22	24	1.84
1923183--1923209	2	13.5	2	100	0	54	0	48	0	51	1.00
1933292--1933324	16	2.0	17	94	5	59	27	0	0	72	0.85
1945571--1945615	19	2.3	20	88	11	67	57	0	22	20	1.40
1951869--1951908	18	2.3	18	80	19	50	42	0	2	55	1.13
1952837--1952863	2	13.5	2	100	0	54	48	0	0	51	1.00
1955363--1955393	2	15.5	2	100	0	62	51	0	0	48	1.00
1956278--1956307	6	5.0	6	91	0	51	0	13	0	86	0.57
1957820--1957852	4	8.2	4	87	12	50	78	0	21	0	0.75
1958749--1958802	19	2.9	18	80	5	63	33	0	0	66	0.92
1958773--1958806	12	2.8	12	95	0	59	41	0	0	58	0.98
1960134--1960186	15	3.5	15	81	2	61	39	0	16	43	1.49
1960400--1960687	15	18.9	15	65	20	75	30	3	0	65	1.15
1960387--1960556	54	3.2	53	71	14	150	30	4	1	64	1.22
1960511--1960594	35	2.4	34	81	11	91	28	2	1	67	1.10
1960331--1960556	108	2.0	113	90	5	363	31	4	0	62	1.22
1960524--1960596	22	3.2	24	77	9	64	30	2	0	67	1.05
1960612--1960676	33	2.0	32	87	3	94	26	1	1	70	1.04
1960585--1960685	26	3.9	27	71	18	72	29	2	0	66	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1960660--1960690	14	2.1	15	94	5	55	35	0	0	64	0.94
1961033--1961066	17	2.0	17	88	0	50	35	0	8	55	1.31
1965234--1965273	16	2.6	15	92	4	62	77	2	2	17	0.99
1965234--1965284	15	3.2	16	83	8	59	78	1	1	17	0.94
1965257--1965312	6	9.5	6	90	3	60	73	7	1	17	1.15
1965234--1965312	18	4.7	17	81	9	74	73	6	2	17	1.16
1969723--1969951	116	2.0	117	87	0	334	27	11	25	35	1.90
1975066--1975104	17	2.4	16	87	8	53	51	0	10	38	1.36
1975278--1975487	108	1.9	108	83	3	271	38	13	3	44	1.62
1976807--1976879	38	1.9	37	86	5	101	36	8	2	52	1.46
1977100--1977139	19	2.2	18	86	13	55	55	5	5	35	1.44
1985853--1985881	14	2.0	15	93	6	51	6	17	0	75	1.01
1993673--1993706	2	17.5	2	87	6	52	47	0	0	52	1.00
2030388--2030417	12	2.5	12	88	0	51	50	13	10	26	1.73
2033272--2033297	12	2.2	12	100	0	52	30	7	19	42	1.79
2034525--2034564	11	3.3	12	82	10	55	15	0	2	82	0.77
2041555--2041596	22	1.9	22	90	9	68	54	0	9	35	1.33
2059972--2060164	82	2.4	80	79	5	217	40	11	12	35	1.80
2062947--2063115	23	7.6	23	77	11	122	37	28	12	21	1.90
2063038--2063119	43	1.9	42	85	7	112	41	26	13	18	1.87
2063034--2063122	22	4.1	22	73	9	85	42	26	12	17	1.85
2084572--2084683	46	2.4	47	82	7	122	46	2	5	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2084678--2084784	45	2.5	43	83	8	130	50	4	2	42	1.37
2088581--2088629	25	2.0	25	100	0	98	40	8	16	34	1.78
2095824--2095894	31	2.3	29	77	15	72	67	4	1	26	1.17
2095819--2095904	15	5.5	15	67	23	52	67	5	1	25	1.20
2098638--2098669	16	2.0	16	93	0	55	31	3	6	59	1.38
2102099--2102174	23	3.3	23	94	0	125	19	31	18	30	1.96
2102571--2102757	81	2.3	80	87	1	268	38	9	11	41	1.73
2103337--2103450	26	4.4	26	75	15	85	31	9	11	47	1.72
2103363--2103468	51	2.0	53	82	7	128	33	10	13	42	1.78
2103557--2103606	24	2.2	22	80	13	64	26	8	20	46	1.78
2111804--2111863	15	3.8	15	75	25	61	71	0	1	26	0.95
2111806--2111884	20	4.1	18	73	18	52	70	0	2	26	0.99
2111800--2111930	33	4.3	33	72	23	101	65	1	3	29	1.16
2111822--2111922	25	3.8	28	72	22	83	67	0	3	27	1.15
2112212--2112242	15	2.1	15	93	0	53	32	25	6	35	1.82
2112878--2112911	2	17.0	2	100	0	68	50	0	0	50	1.00
2120916--2120956	18	2.2	18	86	4	55	21	2	19	56	1.54
2123047--2123117	33	2.2	33	85	12	101	67	2	4	25	1.22
2123035--2123153	55	2.3	50	80	15	127	66	2	4	26	1.23
2123144--2123227	34	2.5	34	84	3	98	67	1	2	28	1.10
2123444--2123519	15	5.1	15	88	0	80	34	25	5	35	1.78
2125738--2125765	2	14.0	2	100	0	56	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)
2129277--2129315	21	1.9	20	89	5	60	41	12	7	38	1.72
2137717--2137754	13	2.9	13	88	0	58	50	15	10	23	1.75
2148569--2148658	31	2.9	31	86	0	99	45	14	8	31	1.75
2149739--2149769	15	2.1	15	93	0	53	41	3	6	48	1.45
2157686--2157724	11	3.2	12	85	10	53	25	25	0	48	1.51
2165100--2165124	2	12.5	2	100	0	50	48	0	0	52	1.00
2166844--2166884	18	2.3	18	82	0	55	9	19	7	63	1.48
2167017--2167058	2	21.5	2	90	4	68	47	0	2	50	1.14
2168370--2168397	13	2.2	13	100	0	56	46	21	17	14	1.84
2169457--2169501	18	2.6	18	80	20	51	22	0	4	73	1.01

Tables:   1   2   3   4   5   6   7   8