genome.fa.s1.2.7.7.80.10.50.1000.4.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   

This is table  4  of  32  ( 3821 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)
1460122--1460150	2	14.5	2	100	0	58	48	0	0	51	1.00
1464398--1464441	3	14.7	3	95	0	79	31	2	0	65	1.05
1469350--1469401	24	2.2	25	83	13	65	30	5	13	50	1.65
1475863--1475930	30	2.3	29	80	9	75	58	0	1	39	1.07
1475879--1475923	21	2.1	22	83	4	56	64	0	0	35	0.94
1475881--1475940	26	2.3	26	83	11	70	63	1	0	35	1.05
1476557--1476611	26	2.1	26	80	12	60	56	0	0	43	0.99
1476569--1476611	12	3.1	14	83	9	54	55	0	0	44	0.99
1476736--1476769	14	2.4	14	85	0	50	58	0	0	41	0.98
1476732--1476774	17	2.5	17	88	7	61	55	0	0	44	0.99
1478233--1478276	22	2.0	21	83	12	54	40	4	4	50	1.43
1478453--1478521	29	2.4	28	74	13	68	53	0	4	42	1.20
1478884--1478948	32	2.0	32	100	0	130	18	24	6	50	1.69
1493305--1493355	23	2.2	23	92	0	84	35	21	21	21	1.96
1494067--1494168	43	2.3	43	81	11	116	41	1	0	55	1.17
1507627--1507661	8	4.4	8	85	0	52	51	11	37	0	1.38
1507631--1507662	14	2.3	14	94	0	55	50	9	40	0	1.35
1516767--1516804	15	2.4	16	82	8	51	31	2	10	55	1.48
1534672--1534707	2	18.0	2	100	0	72	50	0	0	50	1.00
1538959--1538983	2	12.5	2	100	0	50	48	0	0	52	1.00
1540565--1540619	27	2.1	27	83	10	69	65	0	0	34	0.93
1540605--1540646	19	2.2	20	86	4	59	50	2	0	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1548833--1548870	16	2.4	16	86	0	58	57	0	0	42	0.98
1563969--1564008	17	2.4	17	86	0	62	30	5	27	37	1.78
1564251--1564292	17	2.4	18	76	11	52	47	2	7	42	1.43
1569302--1569343	20	2.0	21	86	13	61	47	0	16	35	1.47
1577326--1577355	4	7.5	4	92	0	51	26	0	73	0	0.84
1578406--1578482	25	3.1	25	86	3	102	71	0	0	28	0.86
1578411--1578484	19	3.9	19	71	16	64	70	0	0	29	0.88
1578413--1578457	17	2.8	17	83	9	60	71	0	0	28	0.87
1578801--1578863	18	3.8	16	78	16	56	42	1	0	55	1.09
1620559--1620640	43	1.9	43	97	0	155	29	23	10	36	1.89
1623422--1623561	51	2.8	51	91	1	210	21	32	33	12	1.91
1623651--1623837	69	2.7	70	79	5	218	18	33	41	6	1.76
1624019--1624086	33	2.0	34	86	8	95	25	26	14	33	1.94
1624083--1624150	15	4.5	15	86	0	73	35	2	26	35	1.72
1628539--1628573	3	11.7	3	87	0	52	68	25	2	2	1.17
1629954--1629982	6	5.0	6	95	4	51	0	17	0	82	0.66
1631396--1631437	18	2.5	16	81	11	57	40	0	0	59	0.97
1636723--1636781	17	3.2	19	69	18	52	64	0	1	33	1.04
1637395--1637476	35	2.3	36	79	10	96	43	1	1	53	1.16
1643616--1643644	2	14.5	2	100	0	58	51	0	0	48	1.00
1645339--1645387	25	2.0	25	88	8	73	44	0	2	53	1.12
1649045--1649075	2	15.5	2	93	0	53	48	0	3	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652939--1652981	3	14.7	3	86	13	63	0	30	0	69	0.88
1652940--1652989	12	4.4	11	90	7	73	0	30	0	70	0.88
1652943--1652981	20	2.0	20	90	10	62	0	28	0	71	0.86
1652940--1652989	23	2.2	23	89	7	75	0	30	0	70	0.88
1653435--1653463	3	9.7	3	100	0	58	34	0	0	65	0.93
1656180--1656206	2	13.5	2	100	0	54	51	0	0	48	1.00
1666460--1666490	2	15.5	2	93	0	53	48	3	0	48	1.17
1707366--1707394	14	2.1	14	100	0	58	34	17	0	48	1.47
1712663--1712714	27	1.9	27	88	0	77	44	1	3	50	1.31
1712789--1712822	12	2.8	12	86	4	50	38	0	0	61	0.96
1712758--1712835	26	3.0	27	73	14	74	43	0	0	56	0.99
1713670--1713728	21	2.7	22	87	10	86	22	3	25	49	1.65
1713739--1713806	23	3.0	23	82	2	75	39	26	7	26	1.82
1724739--1724763	12	2.1	12	100	0	50	52	8	40	0	1.31
1736271--1736296	2	13.0	2	100	0	52	50	0	0	50	1.00
1736649--1736715	33	2.0	33	88	0	98	55	7	4	32	1.48
1736826--1736902	31	2.6	29	74	15	77	58	3	0	37	1.17
1736838--1736900	26	2.4	25	80	17	74	60	3	0	36	1.13
1744425--1744528	54	1.9	53	84	11	140	41	11	11	35	1.78
1757924--1757986	19	3.1	20	75	11	65	55	0	0	44	0.99
1757936--1757988	20	2.7	19	85	5	70	58	0	0	41	0.98
1774906--1774945	21	1.9	21	100	0	80	35	25	12	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1778314--1778355	2	21.0	2	100	0	84	50	0	0	50	1.00
1780345--1780377	2	16.5	2	100	0	66	51	0	48	0	1.00
1789377--1789431	28	1.9	29	85	3	76	32	3	1	61	1.24
1798262--1798288	2	13.5	2	100	0	54	48	0	0	51	1.00
1805908--1805946	2	19.5	2	100	0	78	51	0	0	48	1.00
1810321--1810350	2	15.0	2	100	0	60	50	0	0	50	1.00
1824751--1824781	9	3.4	9	90	0	53	25	0	6	67	1.14
1828127--1828156	14	2.1	14	93	0	51	40	0	6	53	1.27
1828694--1828733	11	3.5	11	90	6	62	42	0	0	57	0.98
1831662--1831721	26	2.4	25	80	2	66	5	6	5	83	0.91
1832358--1832406	23	2.2	22	85	3	62	14	6	2	77	1.05
1840477--1840539	19	3.3	19	76	20	60	55	0	0	44	0.99
1882927--1882959	16	2.0	17	94	5	59	45	6	0	48	1.27
1893269--1893302	17	2.0	17	88	11	52	50	0	0	50	1.00
1906700--1906731	16	1.9	17	93	6	57	31	68	0	0	0.90
1910637--1910709	38	1.9	38	94	0	128	36	24	9	28	1.87
1917548--1917581	2	17.0	2	90	0	50	2	44	0	52	1.16
1923585--1923615	16	1.9	16	93	0	53	32	6	54	6	1.51
1925157--1925187	3	10.3	3	92	0	53	64	3	0	32	1.09
1952427--1952470	21	2.2	19	84	8	52	54	0	0	45	0.99
1953250--1953349	30	3.4	29	83	6	112	61	1	1	37	1.10
1953280--1953330	20	2.4	21	83	6	59	60	0	1	37	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1953303--1953343	21	2.0	20	85	4	55	65	0	0	34	0.93
1954260--1954299	21	1.9	21	89	0	62	47	0	2	50	1.14
1959957--1959995	20	2.0	20	85	9	55	41	12	10	35	1.77
1962873--1962898	11	2.4	11	100	0	52	50	0	0	50	1.00
1962958--1963043	39	2.2	39	97	2	165	30	15	0	54	1.41
1962967--1963035	20	3.5	21	71	13	74	24	15	0	59	1.37
1963407--1963437	11	2.8	11	95	0	53	54	0	0	45	0.99
1967930--1967956	7	3.9	7	100	0	54	14	29	0	55	1.40
1981127--1981151	9	2.8	9	100	0	50	32	8	12	48	1.69
1991176--1991295	57	2.1	57	85	1	161	21	28	21	28	1.99
1996096--1996137	21	2.0	21	82	13	52	33	9	0	57	1.31
2005711--2005778	28	2.4	27	78	11	73	39	5	0	54	1.25
2006659--2006689	15	2.1	15	93	0	53	67	0	6	25	1.14
2044559--2044619	31	2.0	31	84	9	81	34	4	4	55	1.43
2044725--2044757	13	2.4	14	90	5	50	57	0	0	42	0.98
2047734--2047764	15	2.0	16	93	6	55	45	0	0	54	0.99
2047698--2047793	49	2.0	49	80	12	108	52	0	0	47	1.00
2047766--2047807	15	2.7	16	85	3	50	52	2	0	45	1.13
2047934--2047967	17	2.0	17	88	0	50	50	2	0	47	1.16
2048017--2048083	22	2.9	24	80	8	84	55	2	0	41	1.15
2047942--2048242	156	1.9	163	83	10	404	52	3	1	41	1.31
2048263--2048344	21	4.0	20	71	14	69	53	0	3	42	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2048096--2048367	142	1.9	142	81	3	325	54	2	2	39	1.31
2050069--2050125	21	2.6	22	83	2	71	1	24	3	70	1.13
2050089--2050135	23	2.1	22	84	4	58	0	25	4	70	1.05
2056891--2056927	2	18.5	2	100	0	74	48	0	0	51	1.00
2067312--2067434	30	4.1	30	85	8	155	39	7	0	52	1.29
2100477--2100527	24	2.1	24	85	0	66	39	1	3	54	1.30
2119374--2119411	12	3.2	12	88	7	51	63	0	26	10	1.27
2119380--2119414	12	3.0	11	91	8	52	68	0	20	11	1.20
2122348--2122394	24	2.0	24	100	0	94	29	21	17	31	1.96
2123698--2123728	2	15.5	2	100	0	62	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32