genome.fa.s12.2.7.7.80.10.50.1000.4.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

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

This is table  4  of  18  ( 2130 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)
1520677--1520779	43	2.4	43	86	3	136	37	17	19	25	1.93
1520717--1520866	43	3.5	43	87	1	201	40	12	18	28	1.87
1520754--1520866	44	2.6	43	92	2	199	41	12	15	30	1.83
1527176--1527209	17	2.0	17	88	0	50	35	5	20	38	1.77
1535601--1535630	16	1.9	16	93	6	53	56	6	10	26	1.57
1541463--1541501	12	3.3	12	92	7	71	0	38	15	46	1.46
1544340--1544383	21	2.0	22	86	4	63	29	0	9	61	1.27
1545035--1545070	12	2.9	13	84	16	58	38	16	44	0	1.48
1546895--1546935	15	2.8	15	88	3	57	78	0	7	14	0.96
1547675--1547705	16	1.9	16	93	0	53	16	0	3	80	0.83
1547680--1547735	9	6.8	8	77	18	53	19	1	0	78	0.84
1547680--1547732	16	3.4	15	85	12	63	18	1	0	79	0.83
1561924--1562018	47	2.0	46	93	2	163	40	28	8	23	1.83
1563322--1563367	23	2.0	23	100	0	92	30	13	30	26	1.93
1568553--1568712	76	2.1	77	89	3	243	43	8	10	38	1.68
1586737--1586784	19	2.5	20	83	6	64	45	2	8	43	1.45
1586737--1586779	20	2.2	19	87	4	59	44	2	9	44	1.49
1600358--1600407	22	2.3	22	96	0	91	48	34	0	18	1.48
1602167--1602254	25	3.4	25	81	7	88	23	18	30	27	1.97
1604086--1604262	86	2.1	86	96	0	327	40	18	9	32	1.81
1605921--1606319	202	2.0	204	90	1	631	39	15	10	34	1.82
1610308--1610386	37	2.1	37	95	0	140	49	7	24	18	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1634204--1634254	19	2.7	19	96	0	93	62	1	31	3	1.24
1635074--1635156	36	2.3	36	77	6	96	30	9	27	32	1.89
1638903--1638961	29	2.0	30	86	6	84	23	23	6	45	1.76
1642902--1642952	15	3.4	15	73	10	59	13	35	9	41	1.78
1642897--1642960	30	2.1	30	94	0	110	14	35	7	42	1.74
1647423--1647449	12	2.2	12	100	0	54	40	0	25	33	1.56
1651480--1651515	16	2.2	17	90	5	56	61	0	0	38	0.96
1651541--1651578	3	12.3	3	94	5	67	65	0	0	34	0.93
1651763--1651806	19	2.3	19	88	0	61	40	2	11	45	1.53
1656934--1657070	73	1.9	70	82	8	168	40	18	16	23	1.90
1665379--1665542	73	2.2	73	85	0	211	36	13	21	28	1.91
1665723--1665747	9	2.8	9	100	0	50	68	12	8	12	1.40
1667828--1667886	30	2.0	30	96	0	109	38	3	0	57	1.15
1667834--1667898	30	2.2	30	88	0	94	38	6	0	55	1.25
1668134--1668184	26	2.0	26	85	7	70	62	1	0	35	1.06
1687528--1687578	24	2.1	24	96	0	93	39	21	15	23	1.92
1695298--1695336	16	2.4	16	87	8	53	38	12	17	30	1.88
1706836--1707117	80	3.5	81	79	3	250	31	20	8	34	1.84
1712270--1712294	4	6.2	4	100	0	50	76	0	0	24	0.80
1733656--1733801	52	2.8	52	79	4	145	42	20	8	28	1.82
1733766--1733873	38	3.0	36	75	11	105	37	23	10	29	1.88
1738946--1739135	74	2.6	74	81	5	240	20	20	18	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744797--1744821	12	2.1	12	100	0	50	36	32	0	32	1.58
1752465--1752506	21	2.0	21	86	9	59	50	4	0	45	1.23
1755707--1755740	15	2.2	16	94	5	61	0	38	5	55	1.24
1756832--1756880	19	2.9	16	81	18	64	42	0	0	57	0.99
1756838--1756878	19	2.2	19	95	4	75	48	0	0	51	1.00
1761527--1761559	12	2.8	12	86	13	50	42	6	3	48	1.43
1762720--1762744	12	2.1	12	100	0	50	48	0	8	44	1.32
1765320--1765509	93	2.0	93	100	0	380	31	20	14	33	1.93
1798451--1798511	25	2.4	25	83	0	68	14	39	9	36	1.80
1811381--1811407	9	3.0	9	100	0	54	44	22	11	22	1.84
1823127--1823163	2	18.5	2	88	0	56	43	0	5	51	1.24
1823127--1823159	12	2.8	12	100	0	66	42	0	6	51	1.26
1825898--1825979	20	3.7	21	73	21	78	45	6	2	46	1.41
1825921--1825982	27	2.3	28	81	18	78	46	6	1	45	1.38
1828279--1828351	38	1.9	38	85	0	101	17	19	24	38	1.93
1830115--1830154	21	1.9	21	89	0	62	40	10	15	35	1.80
1840284--1840327	21	2.0	22	91	4	72	61	6	0	31	1.22
1841184--1841233	20	2.5	20	96	0	91	38	14	14	34	1.85
1842047--1842076	2	15.0	2	92	0	51	46	3	0	50	1.18
1854324--1854416	44	2.1	44	100	0	186	30	18	8	43	1.80
1856429--1856459	10	3.1	10	90	0	53	16	0	12	70	1.16
1862932--1863084	29	5.3	28	74	12	114	40	10	6	42	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1866259--1866314	16	3.4	16	77	2	58	48	3	1	46	1.30
1866279--1866320	22	1.9	22	85	9	59	52	0	2	45	1.13
1866290--1866351	6	10.2	6	84	6	54	48	0	1	50	1.10
1866781--1866830	20	2.5	20	90	0	73	12	28	30	30	1.92
1868272--1868396	29	4.3	28	83	9	112	39	10	8	42	1.69
1871413--1871460	12	4.0	12	89	10	80	0	41	16	41	1.48
1872109--1872152	21	2.0	22	86	4	63	61	9	0	29	1.27
1874075--1874130	21	2.7	21	97	0	103	37	17	8	35	1.82
1874725--1874774	15	3.3	15	85	0	64	36	6	22	36	1.79
1874989--1875089	34	3.0	34	77	10	107	28	4	1	64	1.25
1874989--1875075	34	2.6	34	85	8	108	27	5	2	64	1.28
1875056--1875143	30	3.3	26	69	21	67	32	2	0	64	1.06
1875431--1875463	17	2.1	17	88	11	52	48	0	0	51	1.00
1875456--1875502	23	2.0	23	83	8	58	44	2	0	53	1.12
1880292--1880554	146	1.8	141	81	4	328	26	13	19	39	1.89
1882484--1882534	11	4.7	10	79	15	57	39	0	1	58	1.09
1882485--1882530	21	2.2	20	88	3	65	39	0	2	58	1.10
1887126--1887163	12	3.2	12	88	0	58	42	7	31	18	1.79
1887902--1887954	24	2.2	24	86	6	72	35	5	13	45	1.67
1887913--1887966	24	2.2	24	83	0	63	35	7	16	40	1.77
1888020--1888090	25	2.8	26	80	8	83	36	9	9	43	1.71
1898474--1898594	64	1.9	64	91	0	197	31	23	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1898667--1898733	32	2.1	32	85	0	89	35	23	13	26	1.92
1899915--1899969	17	3.3	17	73	12	51	18	25	3	52	1.61
1900871--1901070	99	2.0	100	89	2	305	36	6	13	44	1.68
1909018--1909213	69	2.9	69	81	8	247	33	21	18	26	1.96
1912539--1912577	20	2.0	20	85	10	53	30	0	15	53	1.42
1913226--1913372	68	2.1	68	82	8	174	28	21	12	36	1.91
1924418--1924451	15	2.3	15	94	0	59	32	32	2	32	1.73
1938899--1938957	25	2.4	25	94	0	100	25	33	15	25	1.95
1942562--1942592	14	2.2	14	100	0	62	51	9	25	12	1.70
1945033--1945066	14	2.4	14	90	0	50	32	2	8	55	1.45
1956627--1956657	2	16.0	2	93	6	55	51	0	0	48	1.00
1960034--1960188	29	5.3	27	72	14	96	41	10	9	38	1.71
1961152--1961195	21	2.0	22	91	4	72	31	0	6	61	1.22
1965382--1965411	13	2.3	13	94	0	51	53	13	3	30	1.56
1971704--1971861	28	5.5	28	79	9	110	44	9	11	34	1.73
1971704--1971854	29	5.4	28	79	11	157	43	9	11	35	1.75
1971690--1971861	56	3.1	56	79	9	165	43	9	11	35	1.74
1971752--1971854	28	3.7	28	83	6	122	41	9	11	36	1.74
1976395--1976453	15	4.3	14	79	18	70	40	1	0	57	1.09
1976793--1976837	21	2.2	21	84	11	58	48	4	2	44	1.35
1980405--1980493	38	2.4	37	80	16	103	29	8	12	49	1.71
1990579--1990705	27	4.4	29	74	12	111	40	13	9	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998275--1998315	3	14.0	3	80	14	50	26	0	0	73	0.84
2000688--2000829	29	4.9	28	83	6	158	41	9	11	36	1.75
2000685--2000829	58	2.5	58	83	6	186	42	9	11	36	1.74
2002750--2002868	35	3.4	36	80	7	122	35	20	20	24	1.96
2002770--2002846	36	2.2	36	85	2	102	37	18	20	23	1.94
2005281--2005332	27	1.9	27	92	0	86	48	1	17	32	1.58
2005541--2005601	15	4.3	15	76	23	69	40	1	0	57	1.08
2005540--2005592	25	2.1	25	82	6	63	41	1	0	56	1.10
2005579--2005638	26	2.3	25	77	8	66	38	0	1	60	1.07
2005637--2005754	25	5.0	23	72	19	66	44	1	0	53	1.16

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