genome.fa.s2.2.7.7.80.10.50.1000.4.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   

This is table  4  of  31  ( 3649 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)
1713551--1713724	84	2.0	87	84	6	230	47	15	16	21	1.83
1715178--1715234	30	1.9	30	85	0	78	35	1	7	56	1.37
1715468--1715546	28	3.0	26	71	14	72	60	0	2	36	1.10
1715765--1715806	2	21.0	2	100	0	84	50	0	0	50	1.00
1734094--1734120	6	4.5	6	100	0	54	29	14	18	37	1.91
1743721--1743844	60	2.1	60	83	3	151	33	7	17	41	1.77
1743982--1744029	22	2.2	22	84	0	60	22	10	22	43	1.84
1744018--1744079	23	2.7	23	83	11	74	20	8	29	41	1.81
1773302--1773328	14	1.9	14	100	0	54	66	7	3	22	1.33
1774196--1774334	65	2.1	65	84	5	174	35	12	18	33	1.88
1774617--1774674	29	2.0	29	100	0	116	31	10	17	41	1.83
1781732--1781787	29	1.9	29	82	13	71	55	3	12	28	1.54
1793574--1793620	2	23.5	2	86	0	67	0	57	0	42	0.98
1862607--1862696	34	2.6	34	91	0	135	20	13	14	52	1.74
1872055--1872130	37	2.1	37	94	0	134	28	19	21	30	1.97
1876866--1876895	2	15.0	2	100	0	60	50	0	0	50	1.00
1894814--1894846	7	4.7	7	96	0	57	9	30	30	30	1.88
1905617--1905650	2	17.0	2	87	0	50	50	5	0	44	1.26
1910831--1910888	28	2.1	28	96	0	107	24	13	20	41	1.89
1918354--1918436	31	2.7	30	74	7	78	30	2	2	65	1.18
1918421--1918478	30	1.9	31	86	10	84	34	8	0	56	1.30
1921484--1921533	15	3.3	15	81	18	59	18	0	0	82	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1921480--1921534	23	2.4	24	87	6	78	20	0	0	80	0.72
1921480--1921538	25	2.5	25	86	8	79	20	0	0	79	0.73
1921500--1921543	12	3.6	12	81	6	52	18	2	0	79	0.83
1921483--1921543	17	3.4	18	78	13	72	19	1	0	78	0.83
1924763--1924841	16	4.9	16	72	14	63	32	0	1	65	1.00
1924699--1924873	91	1.9	87	80	14	194	33	2	0	64	1.11
1924701--1924833	58	2.3	58	88	7	191	34	2	0	62	1.13
1924773--1924964	39	4.8	39	73	17	114	30	2	1	66	1.10
1924736--1924877	33	4.4	33	79	10	125	30	1	0	66	1.05
1924796--1924941	24	5.6	24	69	21	75	29	2	0	67	1.06
1924927--1924979	26	2.0	27	85	3	72	33	1	0	64	1.05
1930040--1930076	16	2.2	18	80	14	51	40	0	2	56	1.13
1930041--1930076	17	2.2	17	90	5	56	41	0	2	55	1.14
1940854--1940893	2	19.5	2	89	5	62	47	0	50	2	1.14
1941078--1941104	6	4.5	6	100	0	54	14	0	66	18	1.25
1941894--1941928	1	35.0	1	94	0	61	0	97	0	2	0.19
1953025--1953124	14	7.3	14	67	8	62	30	29	6	35	1.81
1953026--1953124	41	2.4	42	89	5	157	30	29	6	34	1.82
1958288--1958389	42	2.4	43	93	3	170	30	27	6	35	1.83
1958811--1958861	15	3.8	13	82	14	59	27	1	0	70	0.98
1960125--1960158	15	2.3	15	100	0	68	38	11	0	50	1.39
1966590--1966631	21	2.0	21	86	13	59	38	9	2	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1974053--1974096	18	2.3	20	84	15	74	47	0	0	52	1.00
1974059--1974101	18	2.4	18	100	0	86	41	0	0	58	0.98
1974242--1974292	17	3.2	16	78	15	52	35	1	0	62	1.06
2007027--2007067	17	2.3	19	87	8	59	70	0	0	29	0.87
2013683--2013717	4	8.8	4	93	0	61	25	25	0	48	1.51
2019806--2019854	25	2.0	25	83	0	62	59	4	0	36	1.17
2021270--2021295	3	8.7	3	100	0	52	34	0	0	65	0.93
2023834--2023876	12	3.6	11	79	14	50	4	13	30	51	1.62
2023834--2023887	24	2.2	24	90	0	81	3	16	31	48	1.64
2044645--2044674	15	2.0	15	100	0	60	53	6	13	26	1.64
2052778--2052807	7	4.3	7	95	0	51	0	70	13	16	1.18
2065566--2065608	18	2.4	18	96	0	77	41	2	11	44	1.53
2081650--2081698	24	2.0	24	100	0	98	46	24	16	12	1.81
2098686--2098730	20	2.2	21	88	4	65	4	13	11	71	1.29
2125804--2125833	14	2.1	14	93	0	51	53	0	3	43	1.17
2130524--2130575	23	2.3	23	87	6	72	67	0	0	32	0.91
2130524--2130579	24	2.4	24	82	11	71	66	0	0	33	0.92
2130731--2130780	6	7.8	6	78	12	55	26	0	0	74	0.83
2130710--2130775	15	4.1	15	79	12	69	31	0	0	68	0.90
2130722--2130776	16	3.2	18	70	15	62	29	0	0	70	0.87
2130632--2130796	33	5.0	33	72	15	128	34	1	0	63	1.05
2130713--2130802	20	4.7	19	73	12	60	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2130709--2130818	33	3.0	39	74	20	128	33	0	0	66	0.92
2130880--2130932	21	2.6	21	82	8	56	54	0	0	45	0.99
2134260--2134399	27	5.4	25	71	16	79	41	3	2	52	1.33
2134358--2134483	27	4.6	27	75	9	112	48	6	3	42	1.44
2136016--2136059	7	6.3	7	94	0	79	70	2	0	27	0.99
2142639--2142742	52	2.0	51	88	5	156	26	23	10	39	1.87
2146946--2146971	2	13.0	2	100	0	52	50	0	0	50	1.00
2148326--2148500	29	6.3	27	68	16	92	37	8	10	43	1.70
2148387--2148452	26	2.4	27	90	5	98	33	9	7	50	1.62
2148494--2148519	13	2.0	13	100	0	52	46	23	7	23	1.78
2148603--2148665	32	2.0	32	87	6	94	38	4	0	57	1.20
2148603--2148651	13	3.5	13	77	20	53	44	2	0	53	1.12
2150591--2150644	26	2.0	27	85	3	74	44	9	11	35	1.72
2151115--2151230	58	2.0	58	96	0	214	37	16	18	28	1.92
2154330--2154359	15	2.0	15	100	0	60	46	13	13	26	1.80
2155682--2155805	62	2.0	62	100	0	248	22	9	24	43	1.83
2164961--2164985	2	12.5	2	100	0	50	0	48	0	52	1.00
2169679--2169895	110	2.0	110	82	7	271	33	13	11	40	1.82
2174284--2174310	14	1.9	14	100	0	54	37	14	22	25	1.93
2193948--2193984	4	9.2	4	93	0	65	51	21	0	27	1.48
2196281--2196332	21	2.5	21	75	6	52	1	42	1	53	1.23
2207336--2207650	118	2.8	113	81	6	375	34	9	8	47	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2210969--2211163	98	2.0	98	95	0	354	24	22	20	33	1.97
2214137--2214179	20	2.2	20	95	0	77	51	11	11	25	1.72
2231202--2231233	2	16.0	2	100	0	64	50	0	0	50	1.00
2233477--2233507	4	7.8	4	92	0	53	3	25	0	70	1.02
2242891--2243104	106	2.0	106	96	0	392	31	8	21	38	1.84
2246456--2246493	16	2.3	17	86	4	51	34	7	26	31	1.85
2257338--2257384	21	2.4	19	82	10	58	46	4	0	48	1.21
2257338--2257386	20	2.4	21	86	6	66	46	4	0	48	1.20
2257564--2257607	22	2.0	23	82	13	56	54	0	4	40	1.21
2264703--2264742	16	2.5	17	76	15	50	47	0	0	52	1.00
2268728--2268766	13	3.1	12	85	10	51	82	0	5	12	0.83
2272694--2272842	77	1.9	77	85	6	205	34	10	9	44	1.71
2275578--2275618	3	13.7	3	100	0	82	68	0	0	31	0.90
2282250--2282298	19	2.5	20	78	18	59	44	0	0	55	0.99
2282339--2282391	27	2.0	27	81	3	63	43	0	1	54	1.11
2283577--2283632	29	2.0	28	89	6	87	33	0	1	64	1.04
2296148--2296189	21	2.0	21	100	0	84	23	19	19	38	1.93
2298399--2298556	76	2.1	76	83	2	201	38	13	13	34	1.84
2298498--2298614	52	2.2	52	84	0	153	33	13	17	35	1.89
2298619--2298673	25	2.2	25	83	6	67	52	12	9	25	1.68
2346354--2346447	40	2.3	40	87	0	125	23	20	28	27	1.99
2361515--2361539	2	12.5	2	100	0	50	0	0	48	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2363271--2363295	2	12.5	2	100	0	50	48	0	0	52	1.00
2368924--2368961	19	2.0	19	94	0	67	13	15	2	68	1.32
2369710--2369737	2	14.0	2	100	0	56	50	0	0	50	1.00
2380555--2380579	2	12.5	2	100	0	50	48	0	0	52	1.00
2384005--2384045	14	3.1	14	75	13	50	34	2	0	63	1.08
2385764--2385792	2	14.5	2	100	0	58	48	0	0	51	1.00
2390190--2390227	2	19.0	2	100	0	76	50	0	0	50	1.00
2402169--2402222	18	3.0	18	73	10	56	37	9	14	38	1.79
2403006--2403045	15	2.5	17	84	12	57	62	0	0	37	0.95
2403006--2403052	16	3.0	15	84	6	58	59	0	0	40	0.97

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