genome.fa.s20.2.7.7.80.10.50.1000.6.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_018397273.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_239.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3496717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 994 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)
1786897--1786929	16	2.1	16	100	0	66	33	0	30	36	1.58
1789921--1789967	22	2.1	23	84	11	62	48	17	6	27	1.71
1793991--1794038	14	3.5	14	83	11	64	0	25	0	75	0.81
1793991--1794036	10	4.8	10	80	20	53	0	26	0	73	0.83
1796785--1796913	68	1.9	67	82	4	161	40	10	19	29	1.85
1810634--1810675	21	2.0	20	86	4	57	45	7	0	47	1.30
1814018--1814052	2	18.0	2	88	5	54	51	2	0	45	1.16
1817320--1817434	40	2.9	40	85	0	158	33	20	11	33	1.89
1818468--1818641	52	3.4	49	81	12	181	40	2	2	54	1.28
1818524--1818600	6	12.3	6	74	10	57	42	0	0	57	0.99
1822869--1822893	13	1.9	13	100	0	50	40	8	8	44	1.63
1832164--1832231	27	2.4	30	81	18	83	20	1	10	67	1.28
1836370--1836443	38	1.9	39	83	8	98	37	17	21	22	1.94
1844205--1844238	17	1.9	18	94	5	61	50	0	0	50	1.00
1846576--1846770	73	2.7	73	90	0	291	41	15	18	25	1.89
1852918--1852960	20	2.3	19	88	8	61	27	13	13	44	1.83
1865791--1865862	32	2.2	32	90	0	117	25	31	13	29	1.94
1871989--1872038	25	1.9	25	84	8	64	30	36	14	20	1.91
1880640--1880668	14	2.1	14	93	6	51	55	24	0	20	1.44
1884395--1884446	22	2.4	22	100	0	104	42	9	7	40	1.66
1884417--1884629	76	2.8	77	87	1	293	39	12	7	40	1.71
1897106--1897145	16	2.5	16	91	0	62	80	5	0	15	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1923254--1923289	11	3.0	13	76	23	51	41	16	41	0	1.48
1927024--1927067	21	2.0	22	86	4	63	29	0	9	61	1.27
1942592--1942617	13	2.0	13	100	0	52	30	0	30	38	1.58
1942879--1943018	73	1.9	73	82	5	176	35	15	22	26	1.94
1943078--1943112	18	1.9	18	100	0	70	40	22	11	25	1.88
1946843--1946878	17	2.1	17	94	0	63	47	13	16	22	1.82
1951809--1951861	21	2.6	19	76	8	52	32	15	16	35	1.90
1952880--1953109	80	2.9	80	83	3	259	32	9	24	33	1.88
1960536--1960591	20	2.7	20	83	5	67	33	14	16	35	1.88
1961365--1961541	68	2.6	68	82	1	194	35	11	17	35	1.86
1961425--1961681	68	3.8	68	84	1	309	34	9	18	37	1.84
1961857--1961963	31	3.5	31	84	5	144	28	20	27	24	1.99
1961861--1961989	31	4.2	31	83	4	134	28	20	26	24	1.99
1961858--1961983	62	2.0	62	84	3	164	27	21	25	25	1.99
1970376--1970405	8	3.8	8	95	0	51	60	0	40	0	0.97
1972529--1972572	21	2.0	22	86	4	63	61	9	0	29	1.27
1976993--1977036	21	2.0	22	86	4	63	61	9	0	29	1.27
1983859--1983895	19	2.0	19	89	5	58	54	0	2	43	1.14
1988757--1988860	33	3.1	34	86	5	149	26	15	25	32	1.95
1988757--1988860	34	3.1	33	85	2	145	26	15	25	32	1.95
1995191--1995369	71	2.5	71	85	3	245	44	17	16	20	1.87
1995432--1996313	450	2.0	449	83	3	1132	34	20	13	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998243--1998283	21	2.1	19	86	9	55	60	9	0	29	1.28
2023957--2024043	38	2.3	37	86	3	120	19	26	12	41	1.87
2024525--2024603	29	2.7	29	73	13	72	31	17	7	43	1.77
2024666--2024729	33	1.9	33	83	0	83	37	6	20	35	1.78
2025434--2025500	35	1.9	35	96	0	125	47	4	17	29	1.67
2025434--2025494	17	3.5	17	70	16	54	49	4	16	29	1.66
2027133--2027271	73	1.9	73	89	0	215	33	12	23	29	1.92
2027134--2027295	73	2.2	73	84	2	200	34	12	22	30	1.91
2028782--2028827	18	2.6	19	83	13	62	76	2	19	2	1.00
2035095--2035272	73	2.4	73	79	3	196	37	15	21	24	1.93
2038875--2039264	80	4.9	80	91	2	536	33	9	22	34	1.86
2046579--2046784	102	2.0	102	96	0	376	40	19	17	22	1.91
2049788--2049882	30	3.2	30	77	5	84	44	9	15	30	1.79
2051349--2051399	24	2.2	23	82	10	59	50	0	0	49	1.00
2054952--2054992	22	1.9	21	90	5	64	68	7	2	21	1.26
2061124--2061299	6	29.3	6	76	0	100	32	6	46	15	1.71
2069550--2069597	18	2.7	18	100	0	96	20	31	6	41	1.77
2075603--2075634	16	2.0	16	93	0	55	12	3	18	65	1.38
2076835--2077099	68	3.9	68	75	8	238	36	11	19	32	1.88
2078973--2079012	20	2.0	20	100	0	80	35	10	25	30	1.88
2079359--2079398	20	2.0	20	90	0	62	30	20	22	27	1.98
2086947--2087113	29	5.7	28	80	10	174	35	11	10	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2086947--2087113	60	2.8	58	82	7	203	35	11	10	43	1.75
2091422--2091455	17	2.0	17	94	0	59	32	2	11	52	1.53
2091427--2091465	17	2.2	17	86	9	51	38	0	12	48	1.42
2105010--2105058	21	2.3	21	92	0	80	34	10	20	34	1.86
2106645--2106688	21	2.0	22	91	4	72	31	0	6	61	1.22
2122906--2123072	29	5.8	28	72	10	106	39	10	13	36	1.79
2139559--2139602	13	3.2	13	83	6	52	70	0	29	0	0.88
2143087--2143118	16	2.0	16	93	0	55	12	3	18	65	1.38
2144362--2144619	68	3.8	67	81	3	304	37	10	18	33	1.85
2154047--2154083	3	12.3	3	100	0	74	35	0	32	32	1.58
2181138--2181170	16	2.1	16	88	11	50	0	36	3	60	1.12
2181145--2181197	21	2.5	21	90	0	79	3	43	3	49	1.38
2181501--2181848	175	2.0	175	90	2	556	20	5	25	49	1.70
2182096--2182151	24	2.3	24	81	0	67	50	0	12	37	1.41
2188735--2188772	15	2.5	16	83	12	53	21	21	2	55	1.56
2188870--2189220	184	1.9	184	86	3	501	37	12	10	38	1.78
2190335--2190414	25	3.1	24	75	10	70	27	35	15	22	1.94
2192072--2192123	21	2.4	23	75	12	56	23	17	5	53	1.64
2201908--2201950	18	2.4	18	92	3	70	25	25	9	39	1.85
2203679--2203780	36	2.7	38	76	14	104	36	16	19	27	1.93
2204617--2204661	23	2.0	23	95	0	81	35	15	15	33	1.89
2205562--2205612	18	2.8	19	75	21	56	37	9	25	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2207519--2207627	33	3.2	33	64	21	80	37	10	9	43	1.70
2207514--2207684	69	2.5	69	86	1	227	38	9	9	42	1.71
2210926--2210951	10	2.6	10	100	0	52	26	11	42	19	1.85
2213076--2213146	27	2.7	26	83	14	85	26	2	7	63	1.34
2215184--2215217	17	2.0	17	94	0	59	14	23	0	61	1.33
2217140--2217181	20	2.2	19	86	4	57	19	14	14	52	1.75
2217145--2217192	20	2.3	20	82	3	51	16	18	12	52	1.75
2226774--2226808	15	2.2	17	90	10	56	57	0	0	42	0.99
2227022--2227290	143	2.0	132	89	2	324	17	43	8	26	1.78
2227160--2227344	78	2.4	78	84	1	228	16	45	8	29	1.77
2230182--2230281	14	7.4	14	65	22	52	24	1	14	61	1.39
2230188--2230282	22	4.7	20	69	20	72	24	0	13	62	1.31
2230188--2230325	40	3.4	39	82	8	138	23	0	13	62	1.36
2240678--2240707	2	14.5	2	93	6	51	50	3	0	46	1.18
2241812--2241855	21	2.0	22	86	4	63	31	0	6	61	1.22
2247998--2248043	20	2.3	20	80	0	56	34	21	4	39	1.73
2257222--2257270	20	2.5	20	96	0	89	42	16	12	28	1.84
2261847--2261894	17	2.9	16	78	9	51	58	2	0	39	1.10
2265973--2266047	29	2.7	29	85	4	91	41	9	9	40	1.69
2265999--2266138	28	4.8	29	73	15	101	42	7	10	39	1.67
2266011--2266138	30	4.4	29	76	11	118	42	7	10	39	1.68
2266013--2266146	59	2.3	58	79	5	153	44	8	10	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2267612--2267642	16	1.9	16	93	0	53	51	3	3	41	1.34
2282653--2282736	43	1.9	45	90	7	138	59	1	2	36	1.18
2292672--2292728	20	2.8	20	91	0	87	26	17	22	33	1.96
2298621--2298675	21	2.6	21	79	0	65	40	14	18	27	1.89
2302299--2302353	21	2.6	21	97	2	101	30	9	21	38	1.85
2303413--2303472	32	1.9	32	82	3	77	31	3	28	36	1.74
2312283--2312328	20	2.3	20	96	0	83	39	30	6	23	1.80
2322563--2322678	49	2.4	49	79	2	135	25	11	26	37	1.89
2328346--2328403	22	2.8	20	76	5	53	41	15	15	27	1.87
2332370--2332435	29	2.3	28	76	5	69	37	25	10	25	1.88

Tables:   1   2   3   4   5   6   7   8   9