genome.fa.s10.2.7.7.80.10.50.1000.3.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_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8461613

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

This is table  3  of  18  ( 2155 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)
1469776--1469928	58	2.7	58	86	1	209	13	20	17	48	1.80
1469777--1469958	57	3.2	58	84	1	224	13	20	18	47	1.81
1472393--1472819	186	2.3	186	81	5	459	19	24	13	43	1.87
1472191--1472826	93	6.8	93	75	9	366	20	23	13	42	1.87
1476684--1476716	2	16.5	2	100	0	66	51	48	0	0	1.00
1477195--1477220	2	13.0	2	100	0	52	50	0	0	50	1.00
1476716--1477429	245	2.9	240	82	7	873	32	19	13	34	1.90
1477874--1478120	57	4.3	57	82	3	291	13	21	19	44	1.85
1477874--1478120	114	2.2	114	86	2	336	13	21	19	44	1.85
1480128--1480170	22	2.0	22	90	0	68	44	13	9	32	1.76
1481035--1481487	93	4.8	92	79	6	437	18	23	15	42	1.89
1492622--1492654	6	5.5	6	92	0	57	0	3	63	33	1.10
1497399--1497440	21	2.0	20	86	4	57	40	14	2	42	1.58
1502027--1502062	17	2.1	17	90	10	56	61	19	0	19	1.35
1511489--1511517	13	2.1	14	93	6	51	41	0	0	58	0.98
1521282--1521306	6	4.2	6	100	0	50	68	32	0	0	0.90
1532844--1532937	29	3.2	29	67	22	70	53	10	2	34	1.48
1542310--1542341	2	16.0	2	100	0	64	50	0	50	0	1.00
1549212--1549252	3	13.7	3	84	0	55	63	34	0	2	1.08
1550085--1550118	15	2.2	16	90	10	54	26	0	2	70	1.01
1563608--1563664	28	2.1	27	83	9	71	50	0	3	45	1.18
1563976--1564003	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)
1571853--1571881	2	14.5	2	100	0	58	0	0	51	48	1.00
1574330--1574357	2	14.0	2	100	0	56	50	0	0	50	1.00
1577339--1577378	12	3.1	14	82	17	59	40	5	0	55	1.22
1587471--1587499	15	1.9	15	100	0	58	62	0	10	27	1.28
1587472--1587505	15	2.3	15	89	0	50	64	0	5	29	1.17
1597089--1597126	3	12.7	3	89	10	60	31	0	34	34	1.58
1604748--1604832	29	2.9	29	76	10	91	60	1	0	38	1.05
1606588--1606633	23	2.0	22	83	4	56	65	4	0	30	1.12
1630487--1630571	29	2.9	29	75	8	75	37	0	1	61	1.04
1630508--1630571	28	2.3	27	81	7	74	32	0	1	65	1.02
1630793--1630863	31	2.3	31	90	7	110	52	2	5	39	1.40
1635066--1635119	23	2.3	23	96	0	99	44	11	0	44	1.39
1636960--1637031	34	2.2	33	92	2	117	27	26	29	16	1.97
1638586--1638638	27	2.0	27	92	0	88	35	22	16	24	1.95
1643111--1643148	17	2.2	18	85	4	51	47	0	13	39	1.42
1654354--1654522	58	2.9	58	90	0	248	31	13	14	40	1.84
1655239--1655270	16	1.9	17	93	6	57	18	0	6	75	1.01
1657191--1657294	30	3.5	30	84	3	140	38	0	1	59	1.08
1657519--1657592	28	2.6	29	80	4	87	60	5	1	32	1.27
1659822--1659952	67	2.0	66	92	4	221	28	13	15	42	1.85
1663417--1663468	26	2.0	27	92	3	88	13	11	30	44	1.79
1667912--1667969	27	2.1	28	87	9	84	31	0	1	67	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667925--1667980	26	2.1	27	87	9	80	32	1	0	66	1.03
1668873--1668946	32	2.3	32	83	2	94	32	5	12	50	1.62
1669377--1669440	14	4.4	14	70	14	58	40	0	6	53	1.26
1669582--1669621	21	2.0	21	90	9	66	50	0	0	50	1.00
1670357--1670508	79	1.9	80	83	4	200	30	13	24	31	1.94
1680157--1680187	16	1.9	16	100	0	62	38	25	9	25	1.86
1682613--1682637	7	3.6	7	100	0	50	56	12	0	32	1.36
1683749--1683799	24	2.3	23	83	10	61	50	0	0	49	1.00
1695569--1695652	35	2.5	35	88	3	118	33	0	4	61	1.17
1699803--1699880	25	3.0	25	74	14	61	39	3	0	56	1.18
1700044--1700113	30	2.4	29	78	4	77	58	5	0	35	1.22
1700900--1700940	3	13.7	3	89	0	64	29	0	4	65	1.13
1702633--1702702	34	2.1	34	88	0	104	25	17	21	35	1.95
1702934--1702968	17	2.0	18	88	5	54	65	5	0	28	1.15
1703727--1704540	145	5.2	162	75	11	506	42	12	8	36	1.74
1703980--1704411	145	3.0	143	84	2	531	43	12	7	36	1.71
1707817--1708033	110	2.0	110	89	2	339	24	16	14	45	1.84
1718079--1718174	30	3.2	29	74	10	95	36	6	3	54	1.42
1719078--1719102	2	12.5	2	100	0	50	52	0	0	48	1.00
1732830--1733069	81	3.0	80	74	3	214	36	20	18	24	1.95
1735582--1735607	2	13.0	2	100	0	52	50	0	0	50	1.00
1741803--1741879	30	2.6	30	82	0	91	53	2	5	38	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1741857--1741937	29	2.8	30	83	7	96	54	0	0	45	0.99
1741918--1741964	25	2.0	24	91	8	78	42	2	0	55	1.12
1743298--1743337	17	2.6	16	88	11	57	47	2	0	50	1.14
1744174--1744220	20	2.4	21	75	13	55	59	2	0	38	1.09
1749125--1749200	39	1.9	39	97	0	143	22	17	18	42	1.89
1769858--1769898	20	2.1	19	86	13	57	41	0	4	53	1.22
1775537--1775667	68	1.9	69	93	1	228	39	5	12	42	1.65
1776010--1776038	15	1.9	15	100	0	58	24	27	20	27	1.99
1783405--1783432	2	14.0	2	100	0	56	50	0	0	50	1.00
1786199--1786269	29	2.4	29	80	2	88	63	1	0	35	1.03
1793964--1793990	2	13.5	2	100	0	54	51	0	0	48	1.00
1806374--1806412	18	2.2	18	86	9	53	35	10	7	46	1.67
1818855--1818919	30	2.2	30	85	0	85	26	4	4	64	1.32
1820305--1820436	70	1.9	70	93	1	230	33	14	14	37	1.86
1837377--1837416	2	20.0	2	100	0	80	50	0	0	50	1.00
1842559--1842667	52	2.1	52	89	0	164	17	12	12	56	1.66
1844941--1844970	16	1.9	15	93	6	51	66	13	6	13	1.43
1845784--1845829	23	2.0	23	87	4	67	36	4	10	47	1.58
1846037--1846074	19	2.0	20	89	5	60	65	0	2	31	1.06
1846901--1847228	117	2.8	117	91	0	512	29	20	23	27	1.98
1848223--1848302	29	2.8	29	84	1	90	38	0	2	58	1.11
1848251--1848323	29	2.5	29	79	2	74	36	2	2	57	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1848687--1848725	2	19.5	2	100	0	78	48	0	0	51	1.00
1868214--1868251	18	2.2	17	86	13	51	28	0	0	71	0.87
1869062--1869143	30	2.8	30	87	7	114	36	1	1	60	1.12
1871794--1871878	30	2.8	30	83	3	100	58	8	2	30	1.40
1871794--1871855	31	2.0	31	90	3	99	56	8	3	32	1.44
1875636--1875665	2	15.0	2	100	0	60	50	0	0	50	1.00
1878551--1878880	165	2.0	165	93	0	570	40	23	8	26	1.83
1880651--1880736	27	3.2	27	86	0	109	25	18	29	26	1.98
1906170--1906245	31	2.4	32	82	8	93	34	2	2	60	1.24
1906298--1906364	33	2.0	33	85	0	89	46	4	8	40	1.56
1906313--1906375	33	1.9	33	83	0	81	42	7	7	41	1.63
1906502--1906573	30	2.5	29	81	4	92	56	4	2	36	1.33
1906502--1906567	29	2.2	30	86	2	89	57	4	3	34	1.34
1907241--1907278	2	19.0	2	100	0	76	50	0	0	50	1.00
1916180--1916224	22	2.0	23	82	4	56	66	0	0	33	0.92
1927305--1927419	60	1.9	60	80	0	131	43	18	10	27	1.82
1931740--1931794	24	2.3	24	90	0	92	21	10	16	50	1.75
1933008--1933036	15	1.9	15	100	0	58	44	27	20	6	1.77
1940551--1940581	2	15.5	2	100	0	62	0	48	0	51	1.00
1948781--1948819	20	2.0	20	90	10	62	66	0	2	30	1.05
1951333--1951367	2	17.5	2	100	0	70	0	51	0	48	1.00
1959020--1959061	22	1.9	22	90	9	68	57	0	11	30	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1959430--1959487	30	2.0	29	82	3	71	39	12	1	46	1.51
1959554--1959633	33	2.4	33	73	8	90	38	11	13	36	1.81
1963210--1963239	14	2.1	14	93	0	51	3	10	6	80	1.01
1963450--1963491	22	1.9	21	85	9	57	59	0	9	30	1.29
1963798--1963836	20	2.0	20	85	10	53	53	2	2	41	1.28
1963800--1963842	20	2.1	21	82	4	52	53	2	2	41	1.26
1964022--1964067	22	2.1	22	84	15	60	58	2	4	34	1.30
1971611--1971826	116	1.9	116	82	5	276	30	4	12	52	1.59
1985859--1985900	22	1.9	22	85	0	57	45	26	14	14	1.83
1986572--1986670	27	3.6	27	74	12	101	39	0	0	60	0.97

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