genome.fa.s21.2.7.7.80.10.50.1000.4.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_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  4  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)
1478151--1478497	34	10.2	34	74	2	212	35	22	14	27	1.93
1490038--1490389	186	1.9	187	85	5	498	25	12	26	34	1.92
1494115--1494140	2	13.0	2	100	0	52	0	50	0	50	1.00
1505026--1505082	12	4.6	12	80	6	69	17	22	8	50	1.73
1505026--1505082	24	2.3	25	90	6	89	17	22	8	50	1.73
1506185--1506301	60	2.0	59	91	1	189	36	11	21	29	1.89
1507795--1507907	59	1.9	59	85	3	156	35	10	21	32	1.88
1509737--1509846	56	2.0	56	87	0	157	41	10	19	28	1.85
1513348--1513377	15	1.9	16	93	6	53	33	3	0	63	1.11
1518649--1518708	31	1.9	31	96	0	111	21	33	25	20	1.97
1524027--1524070	20	2.1	21	83	8	54	65	2	0	31	1.05
1537801--1537857	24	2.4	25	82	8	73	38	0	0	61	0.96
1538054--1538085	17	1.9	17	93	6	57	50	0	0	50	1.00
1538134--1538166	14	2.3	15	89	5	50	12	9	0	78	0.95
1539017--1539059	16	2.7	15	80	20	52	41	2	2	53	1.26
1539388--1539429	19	2.2	19	91	4	66	50	2	0	47	1.14
1540020--1540083	34	1.9	32	84	6	83	42	14	6	37	1.70
1541089--1541113	2	12.5	2	100	0	50	52	0	0	48	1.00
1543069--1543098	2	15.0	2	100	0	60	50	0	50	0	1.00
1544390--1544416	12	2.2	12	100	0	54	77	0	14	7	0.97
1548146--1548213	24	2.8	24	93	0	118	25	22	38	14	1.92
1548229--1548437	15	14.3	15	73	9	164	42	23	13	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1548240--1548467	30	7.9	30	86	10	271	41	24	13	20	1.88
1548240--1548478	56	4.1	57	82	12	226	41	24	13	20	1.88
1555250--1555326	29	2.8	28	81	18	106	58	0	2	38	1.12
1557957--1558016	28	2.1	28	100	0	120	26	6	3	63	1.35
1564596--1564660	21	3.1	21	79	0	76	26	27	13	32	1.94
1564596--1564682	42	2.1	42	84	0	111	25	27	12	34	1.92
1564651--1564708	21	2.8	21	84	5	55	27	27	5	39	1.78
1566138--1566175	20	1.9	20	89	10	60	42	5	0	52	1.24
1574272--1574301	16	1.9	15	93	6	51	56	10	0	33	1.32
1574371--1574426	30	1.9	30	82	13	73	60	0	3	35	1.14
1577693--1577726	16	2.1	16	88	0	50	50	14	2	32	1.58
1581881--1581912	13	2.5	13	95	5	57	12	6	0	81	0.87
1585492--1585561	18	3.9	18	72	9	63	25	11	18	44	1.83
1596609--1596658	23	2.2	23	88	0	73	52	2	10	36	1.47
1598326--1598361	15	2.4	16	82	17	51	33	5	2	58	1.36
1598498--1598563	23	3.0	21	80	8	69	34	3	4	57	1.34
1603085--1603111	4	6.8	4	100	0	54	0	51	22	25	1.48
1604536--1604571	17	2.1	17	89	0	54	47	5	11	36	1.63
1611910--1611958	24	2.0	24	88	7	73	42	8	12	36	1.72
1613238--1613265	2	14.0	2	100	0	56	50	0	0	50	1.00
1614463--1614521	26	2.2	27	87	3	84	40	10	16	32	1.82
1614571--1614630	27	2.2	27	82	5	68	41	13	10	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1614695--1614765	28	2.5	28	84	4	90	38	16	15	29	1.90
1614852--1614909	26	2.2	26	87	0	80	43	12	12	32	1.79
1614901--1615067	86	1.9	86	85	2	228	36	8	16	38	1.79
1619347--1619523	25	7.1	24	71	10	104	36	7	25	29	1.85
1619363--1619473	50	2.2	50	78	0	123	33	7	26	33	1.84
1623003--1623091	45	2.0	45	82	8	110	35	12	28	23	1.91
1623083--1623165	23	3.6	23	78	12	107	44	12	24	19	1.84
1623106--1623190	23	3.7	23	75	0	89	40	15	24	20	1.91
1623176--1623905	23	31.9	23	71	9	283	38	11	27	22	1.89
1622971--1623964	46	21.7	46	73	8	329	38	12	26	22	1.89
1623886--1623973	23	3.8	23	76	11	72	43	11	25	20	1.85
1625194--1625250	26	2.2	26	87	3	80	45	17	7	29	1.75
1632035--1632068	17	2.0	17	88	11	52	47	0	0	52	1.00
1634696--1634748	28	1.9	28	84	3	72	35	1	1	60	1.19
1638391--1638444	27	1.9	29	88	7	85	62	0	0	37	0.95
1640286--1640332	18	2.6	18	79	0	58	44	10	8	36	1.70
1641900--1641925	2	13.0	2	100	0	52	50	0	0	50	1.00
1642834--1642986	82	1.9	83	92	1	263	47	4	9	38	1.56
1646710--1646740	15	2.1	15	100	0	62	48	12	25	12	1.77
1647322--1647589	134	2.0	134	99	0	527	46	7	8	37	1.63
1648102--1648160	30	2.0	30	86	0	82	38	6	5	49	1.52
1654720--1654908	95	2.0	95	93	0	324	43	11	19	24	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1658501--1658550	22	2.2	23	89	10	77	50	0	8	42	1.32
1659243--1659286	19	2.3	19	88	11	63	52	0	0	47	1.00
1667669--1667724	24	2.3	24	81	6	69	82	5	10	1	0.91
1668361--1668398	7	5.4	7	87	12	60	73	0	15	10	1.09
1671455--1671490	10	3.6	10	88	0	54	47	0	5	47	1.25
1671456--1671495	20	2.0	20	90	0	62	47	2	5	45	1.38
1672960--1672991	2	16.5	2	93	6	57	50	0	0	50	1.00
1697701--1697759	12	4.7	12	74	12	55	18	33	6	40	1.77
1697704--1697765	15	3.9	15	78	12	61	17	33	8	40	1.79
1697719--1697766	21	2.3	21	81	0	60	20	31	8	39	1.82
1699983--1700027	2	22.5	2	100	0	90	48	0	0	51	1.00
1707296--1707370	38	2.0	38	83	0	96	34	17	5	42	1.72
1713283--1713312	15	2.0	15	93	0	51	63	6	13	16	1.50
1720029--1720057	8	3.6	8	100	0	58	37	13	10	37	1.79
1721223--1721834	342	1.8	339	84	4	857	42	7	6	43	1.59
1722361--1722390	15	2.0	15	93	0	51	3	30	0	66	1.07
1724145--1724185	21	1.9	22	85	5	57	65	7	9	17	1.44
1726300--1726357	26	2.3	27	80	14	70	34	0	0	65	0.93
1727730--1727771	19	2.2	19	91	0	66	30	0	0	69	0.89
1736710--1736734	2	12.5	2	100	0	50	48	0	0	52	1.00
1747078--1747170	45	2.1	45	84	8	118	18	43	16	22	1.88
1751263--1751297	6	5.8	6	96	0	52	0	42	34	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1758021--1758080	23	2.5	25	81	7	72	48	1	3	46	1.28
1758279--1758323	21	2.1	21	88	8	65	64	0	0	35	0.94
1758275--1758339	27	2.5	28	80	12	75	58	0	0	41	0.98
1758267--1758339	27	2.5	30	79	14	73	58	0	0	41	0.98
1760665--1760731	27	2.5	27	100	0	134	35	5	14	43	1.71
1760879--1760937	30	2.0	30	86	0	82	32	8	8	50	1.63
1761348--1761401	19	2.9	19	71	17	51	53	0	1	44	1.11
1763444--1763497	21	2.5	23	74	20	71	46	1	1	50	1.23
1763517--1763556	20	2.0	20	85	9	55	67	0	2	30	1.04
1764532--1764571	12	3.2	12	86	6	53	37	0	0	62	0.95
1768219--1768270	28	2.0	26	82	14	63	51	0	0	48	1.00
1768510--1768563	27	2.1	27	83	10	69	64	0	1	33	1.04
1772124--1772162	19	2.1	19	85	9	53	38	2	5	53	1.37
1775155--1775183	13	2.2	13	100	0	58	13	55	17	13	1.70
1775577--1775626	24	2.1	24	81	3	57	72	2	10	16	1.21
1778227--1778257	16	1.9	16	93	0	53	70	0	16	12	1.16
1779292--1779372	23	3.6	23	67	9	60	45	0	3	50	1.19
1780389--1780417	5	5.8	5	100	0	58	37	20	0	41	1.53
1780461--1780485	5	5.0	5	100	0	50	0	20	0	80	0.72
1791513--1791542	2	15.0	2	100	0	60	0	50	0	50	1.00
1801819--1801858	18	2.2	18	90	0	62	40	22	0	37	1.54
1803898--1803986	45	2.0	46	82	10	112	17	22	34	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1804867--1804900	17	2.0	18	88	11	54	55	0	0	44	0.99
1805502--1805567	29	2.2	29	83	2	87	30	13	7	48	1.70
1808056--1808093	16	2.3	17	81	4	51	65	0	13	21	1.26
1810146--1810193	17	2.8	17	77	17	55	50	0	0	50	1.00
1809973--1810595	200	3.0	205	83	7	778	46	3	7	42	1.49
1810532--1810585	23	2.5	22	80	14	58	44	0	7	48	1.31
1810579--1810626	20	2.3	20	89	3	69	45	2	0	52	1.12
1812084--1812122	20	2.0	20	89	0	60	51	0	0	48	1.00
1812088--1812146	31	2.1	26	84	15	73	49	0	0	50	1.00
1812099--1812140	22	1.9	22	90	0	66	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8