genome.fa.s13.2.7.7.80.10.50.1000.4.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

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  ( 2072 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)
1428368--1428469	51	2.0	51	96	0	186	32	18	12	36	1.89
1432093--1432224	60	2.2	60	78	5	142	35	24	14	25	1.93
1432200--1432242	22	2.0	22	85	0	59	46	16	9	27	1.77
1447994--1448047	26	2.1	27	86	6	76	59	5	3	31	1.38
1448659--1448697	2	19.5	2	89	0	60	48	2	2	46	1.29
1457400--1457483	31	2.8	29	81	3	87	32	5	15	46	1.70
1457400--1457490	29	3.1	29	78	10	85	29	6	14	49	1.68
1457420--1457527	57	1.9	56	83	5	137	32	9	12	46	1.73
1457533--1457653	45	2.7	45	81	10	147	36	15	13	34	1.87
1460224--1460259	18	1.9	18	88	5	54	50	0	2	47	1.15
1461738--1461817	41	2.0	41	87	4	119	23	22	18	35	1.96
1461891--1462002	57	2.0	57	94	0	197	16	39	16	28	1.89
1461979--1462239	130	2.0	130	93	1	452	21	32	21	24	1.97
1462347--1462389	21	2.0	21	100	0	86	46	20	9	23	1.79
1462397--1462440	22	2.0	22	100	0	88	18	22	13	45	1.84
1462442--1462750	156	2.0	155	82	3	370	22	29	20	26	1.99
1477713--1477753	2	21.5	2	90	9	68	51	0	0	48	1.00
1477713--1477753	15	2.7	15	96	0	73	51	0	0	48	1.00
1477713--1477755	13	3.2	13	93	6	68	51	0	0	48	1.00
1478178--1478220	2	22.0	2	90	4	61	46	0	0	53	1.00
1490948--1491086	69	2.0	67	90	2	215	52	8	11	27	1.66
1492313--1492352	21	2.0	20	85	5	53	67	2	7	22	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492447--1492496	25	2.0	24	88	3	73	60	18	10	12	1.59
1501644--1501939	151	2.0	151	81	6	348	34	8	10	46	1.69
1515900--1515961	30	2.1	30	100	0	124	32	16	14	37	1.89
1532340--1532486	72	2.0	72	96	0	267	42	21	14	21	1.88
1535416--1535454	4	9.8	4	88	0	60	53	20	0	25	1.45
1538096--1538134	19	2.1	19	85	0	51	38	15	2	43	1.60
1541151--1541238	45	2.0	45	88	0	131	34	14	17	34	1.90
1541178--1541321	76	1.9	76	82	0	180	36	16	15	31	1.90
1541255--1541345	24	3.9	23	68	16	71	36	18	15	29	1.92
1542032--1542302	134	2.0	132	83	5	332	35	8	11	45	1.70
1555273--1555315	2	21.5	2	95	0	77	48	0	51	0	1.00
1575589--1575640	27	1.9	27	92	0	86	48	1	0	50	1.12
1575721--1575778	29	2.0	29	83	12	75	50	3	0	46	1.18
1581881--1582017	39	3.5	38	80	5	123	30	6	16	46	1.72
1592933--1592972	2	21.0	2	90	10	66	47	0	0	52	1.00
1594273--1594313	20	2.0	21	86	13	59	68	2	0	29	1.03
1601077--1601122	23	2.0	23	95	0	83	43	15	21	19	1.87
1605015--1605078	25	2.6	25	89	0	101	37	21	17	23	1.94
1605122--1605165	23	1.9	23	86	9	63	40	25	11	22	1.87
1626123--1626157	15	2.3	15	90	9	54	88	2	8	0	0.61
1626123--1626171	22	2.2	23	85	3	64	85	8	6	0	0.73
1627112--1627155	19	2.4	18	85	11	54	47	2	0	50	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627149--1627206	30	2.0	30	83	10	75	29	0	1	68	0.99
1627494--1627531	20	1.9	19	94	5	67	47	5	0	47	1.24
1628723--1628759	5	7.2	5	87	6	56	75	0	24	0	0.80
1628723--1628763	15	2.7	16	88	11	68	73	0	26	0	0.84
1636639--1636706	30	2.3	30	100	0	136	33	42	7	16	1.76
1652887--1652914	4	7.0	4	100	0	56	50	25	0	25	1.50
1653576--1653625	2	25.0	2	88	8	75	4	50	0	46	1.20
1659358--1659389	16	2.0	16	93	0	55	40	3	6	50	1.43
1668701--1668765	2	33.0	2	75	9	53	53	3	41	1	1.25
1668701--1668767	35	1.9	35	90	6	109	55	2	40	1	1.24
1676978--1677019	21	1.9	23	85	9	61	9	11	7	71	1.31
1679725--1679808	33	2.5	33	84	5	96	38	2	13	46	1.56
1680030--1680078	3	16.3	3	95	0	89	32	0	2	65	1.04
1680253--1681293	519	2.0	519	88	1	1570	39	10	14	34	1.82
1689094--1689119	2	13.0	2	100	0	52	50	0	50	0	1.00
1689625--1689660	6	6.0	6	96	0	63	0	0	13	86	0.58
1692789--1692845	20	2.8	20	97	0	105	31	10	26	31	1.90
1693102--1693139	20	1.9	20	94	0	67	36	10	18	34	1.85
1698738--1698770	16	2.1	16	94	0	57	36	30	0	33	1.58
1701339--1701416	33	2.4	33	97	0	147	34	19	7	38	1.80
1701894--1702064	83	2.1	83	90	0	270	40	14	16	27	1.88
1711384--1711412	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1717271--1717684	143	2.9	142	82	6	439	24	18	15	41	1.89
1717244--1717709	71	6.6	70	74	7	323	25	18	15	41	1.89
1717365--1717719	72	5.0	70	78	6	313	25	18	14	41	1.89
1720883--1721172	23	12.7	23	73	7	178	23	28	13	34	1.93
1720886--1721146	91	2.9	91	79	8	251	24	27	12	36	1.91
1720883--1721147	69	3.9	68	77	1	233	23	27	12	36	1.91
1720883--1721179	69	4.3	68	74	4	229	23	28	13	34	1.93
1727246--1727282	2	18.5	2	100	0	74	51	0	0	48	1.00
1733707--1733735	12	2.3	13	94	5	51	34	0	3	62	1.12
1736776--1736876	29	3.3	30	82	9	116	51	2	5	39	1.41
1746736--1746761	2	13.0	2	100	0	52	50	0	0	50	1.00
1747552--1747576	13	1.9	13	100	0	50	8	44	0	48	1.32
1748711--1748796	31	2.8	29	71	7	73	36	16	10	37	1.83
1750187--1750231	22	2.0	23	82	4	56	37	28	11	22	1.88
1750540--1750601	23	2.7	23	82	2	72	33	29	12	24	1.92
1752000--1752098	36	2.8	37	90	3	114	28	17	33	21	1.95
1753640--1754060	215	2.0	214	86	4	589	44	8	30	16	1.78
1756688--1756728	2	20.5	2	100	0	82	48	0	0	51	1.00
1764521--1764732	47	4.6	47	88	1	302	45	12	6	35	1.66
1764521--1764732	93	2.3	93	88	1	300	45	12	6	35	1.66
1767541--1767577	20	1.9	18	89	10	56	51	2	0	45	1.15
1767549--1767596	20	2.5	20	83	10	55	50	2	0	47	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1767570--1767612	15	2.8	15	82	3	50	48	2	0	48	1.14
1768966--1768995	15	2.0	15	100	0	60	33	0	13	53	1.40
1777873--1778148	144	1.9	144	93	1	482	37	3	17	41	1.66
1799145--1799225	29	2.8	29	86	1	101	46	8	28	16	1.76
1799173--1799231	29	2.0	29	96	0	109	44	8	30	16	1.78
1799723--1799759	15	2.5	15	86	0	56	43	18	13	24	1.86
1805019--1805133	29	4.0	29	82	0	131	46	9	26	16	1.77
1805514--1805541	13	2.2	13	100	0	56	7	39	17	35	1.78
1807323--1807374	21	2.5	21	81	6	52	69	0	5	25	1.10
1808663--1808693	16	2.0	15	93	6	53	67	0	0	32	0.91
1808668--1808710	21	2.0	22	90	4	70	69	0	0	30	0.88
1807858--1809291	251	5.7	251	78	6	1266	50	5	9	34	1.58
1807858--1809214	746	1.8	750	81	5	1686	49	5	9	35	1.58
1809739--1809792	24	2.2	24	78	12	58	68	9	14	7	1.38
1835444--1835507	34	1.9	34	90	3	103	59	7	3	29	1.41
1839688--1839725	14	2.6	14	91	4	58	34	5	2	57	1.35
1839980--1840022	17	2.5	17	85	11	52	60	4	2	32	1.30
1857019--1857064	23	2.0	23	87	8	67	34	8	0	56	1.30
1857689--1857793	45	2.4	45	78	13	119	44	1	9	43	1.47
1875871--1875907	2	18.5	2	100	0	74	51	48	0	0	1.00
1875907--1875936	2	15.0	2	100	0	60	50	0	0	50	1.00
1878973--1879004	6	5.3	6	100	0	64	34	15	15	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882360--1882408	21	2.3	22	82	7	64	26	6	16	51	1.68
1882448--1882543	46	2.1	46	84	0	120	36	21	10	31	1.87
1882459--1882545	23	3.8	23	71	0	75	37	21	10	29	1.87
1882529--1882579	22	2.3	22	80	6	59	43	17	13	25	1.86
1882605--1882688	22	3.8	22	78	6	80	45	19	8	27	1.78
1882784--1882910	52	2.5	50	82	5	155	37	18	9	34	1.83
1885610--1885652	19	2.2	20	92	8	72	48	0	2	48	1.14
1885832--1885870	15	2.5	15	83	4	51	53	0	2	43	1.14
1892174--1892210	2	18.5	2	100	0	74	48	0	0	51	1.00
1893845--1893905	27	2.3	27	82	0	77	63	1	0	34	1.04

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