genome.fa.s19.2.7.7.80.10.50.1000.5.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_018397272.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3572271

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1018 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)
1662311--1662367	29	2.0	29	92	0	96	50	14	10	24	1.73
1664411--1665654	623	2.0	624	90	1	1985	33	14	21	31	1.93
1668648--1668682	17	2.1	17	88	0	52	48	2	0	48	1.16
1668898--1669015	59	2.0	59	83	0	146	44	13	11	31	1.79
1670470--1670528	21	2.8	21	84	0	73	40	16	15	27	1.89
1671579--1671635	26	2.2	26	96	0	105	28	5	7	59	1.45
1680422--1680451	2	15.0	2	100	0	60	50	0	0	50	1.00
1680723--1680805	33	2.5	33	80	0	94	39	19	7	33	1.79
1684467--1684499	3	11.0	3	100	0	66	66	0	33	0	0.92
1702955--1702988	2	17.0	2	93	0	59	50	0	2	47	1.16
1710391--1710509	54	2.2	55	81	6	143	31	12	15	41	1.84
1710407--1710519	55	2.1	54	81	5	129	35	12	14	38	1.83
1710581--1710723	55	2.6	56	79	10	150	39	11	14	34	1.83
1714304--1714350	22	2.1	23	88	11	71	48	14	6	29	1.69
1714672--1714813	71	2.0	71	90	0	221	29	10	20	39	1.86
1717242--1717288	20	2.3	20	78	7	51	42	8	17	31	1.79
1723159--1723241	29	2.9	28	91	5	130	38	7	14	39	1.74
1723411--1723444	17	2.0	17	88	11	52	38	0	14	47	1.45
1724864--1724896	17	1.9	17	100	0	66	36	6	18	39	1.75
1735904--1735938	2	17.5	2	100	0	70	48	0	0	51	1.00
1737419--1737483	28	2.3	29	81	10	80	9	13	1	75	1.11
1739137--1739207	36	2.0	36	94	0	124	35	9	25	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1742625--1742675	23	2.2	23	82	6	59	33	9	41	15	1.80
1743978--1744022	10	4.4	10	80	5	54	26	4	0	68	1.08
1749118--1749160	19	2.3	19	88	4	61	44	2	2	51	1.27
1773936--1774038	29	3.7	30	67	29	84	22	0	19	57	1.47
1773957--1774001	23	1.9	23	82	13	56	24	0	20	55	1.43
1773797--1774154	49	7.1	50	79	11	356	25	1	16	56	1.49
1773754--1774154	153	2.7	147	79	11	408	25	1	15	57	1.48
1773797--1774154	104	3.6	99	80	9	359	25	1	16	56	1.49
1774487--1774546	31	1.9	31	83	6	77	45	3	6	45	1.46
1779936--1780088	46	3.5	42	87	7	175	28	9	32	30	1.88
1779956--1780099	46	3.1	46	94	0	252	28	7	35	28	1.85
1780407--1780462	23	2.4	22	82	8	58	41	0	7	51	1.29
1780525--1780570	13	3.5	13	79	5	56	43	2	8	45	1.47
1786752--1786796	16	2.8	17	77	12	51	53	4	2	40	1.33
1786847--1786903	2	29.0	2	85	3	62	43	0	5	50	1.24
1787973--1788005	17	1.9	17	100	0	66	27	0	6	66	1.15
1792224--1792252	2	14.5	2	100	0	58	48	0	0	51	1.00
1799562--1799594	14	2.3	15	89	5	50	42	3	3	51	1.32
1807531--1807601	35	2.0	35	91	0	115	46	7	15	30	1.72
1812704--1812746	3	14.3	3	100	0	86	32	0	0	67	0.91
1818239--1818324	35	2.4	35	78	5	93	26	15	24	33	1.95
1818792--1818853	25	2.5	25	86	2	72	30	4	14	50	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1818800--1818853	25	2.2	25	93	0	90	31	3	14	50	1.61
1827719--1827749	2	15.5	2	100	0	62	51	0	0	48	1.00
1842971--1843156	72	2.6	71	78	5	178	33	18	24	23	1.96
1848709--1848745	2	18.5	2	94	0	65	48	0	2	48	1.15
1849086--1849111	2	13.0	2	100	0	52	50	0	0	50	1.00
1883780--1883831	18	3.0	18	83	8	63	40	30	5	23	1.78
1892440--1892579	73	1.9	73	89	2	219	38	7	8	45	1.62
1892438--1892594	74	2.2	72	86	8	219	38	8	7	45	1.63
1898860--1898961	32	3.2	32	67	20	97	14	19	44	21	1.87
1898824--1898983	62	2.8	54	78	14	176	15	19	44	21	1.86
1898861--1899023	62	2.6	62	84	2	213	15	20	42	22	1.89
1900840--1900903	25	2.6	25	74	16	71	54	15	4	25	1.60
1901463--1901514	22	2.4	22	96	0	95	55	11	0	32	1.36
1901465--1901507	12	3.8	12	75	12	54	58	13	0	27	1.37
1906817--1906858	16	2.6	16	71	14	50	42	7	2	47	1.43
1906979--1907013	17	2.0	18	88	5	54	45	5	0	48	1.26
1908496--1908535	21	1.9	21	85	10	55	47	20	7	25	1.75
1908589--1908628	13	3.1	13	88	0	53	82	12	2	2	0.87
1910762--1910811	20	2.5	20	76	0	55	48	8	6	38	1.57
1912193--1912283	33	2.7	34	79	5	105	30	17	18	32	1.94
1918547--1918597	25	2.0	26	85	11	70	43	5	1	49	1.38
1919495--1919529	16	2.2	16	89	0	52	17	2	5	74	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1922334--1922440	11	9.4	11	73	13	83	0	15	2	80	0.88
1922315--1922440	32	3.8	34	72	17	86	0	15	3	79	0.93
1922345--1922441	21	4.8	20	74	13	83	2	16	3	78	0.98
1923421--1923453	2	16.5	2	100	0	66	48	0	0	51	1.00
1933874--1933916	21	2.2	19	84	16	52	30	6	0	62	1.21
1936897--1936935	15	2.6	15	83	0	51	30	0	2	66	1.05
1936949--1936973	2	12.5	2	100	0	50	52	0	0	48	1.00
1937793--1938015	111	2.0	111	80	1	250	27	11	23	37	1.89
1945135--1945176	18	2.6	16	82	17	59	73	0	0	26	0.83
1946448--1946473	7	3.7	7	100	0	52	11	46	15	26	1.80
1952822--1952848	1	27.0	1	100	0	54	0	0	100	0	0.00
1983200--1983310	52	2.1	52	94	0	195	21	17	23	37	1.93
1992974--1993005	2	16.0	2	100	0	64	50	0	0	50	1.00
1999984--2000028	22	2.0	22	87	8	65	40	2	28	28	1.69
2000472--2001043	59	9.7	58	81	5	560	33	13	16	36	1.88
2000472--2001040	179	3.2	175	82	5	637	33	13	17	36	1.88
2005034--2005069	16	2.2	16	100	0	72	41	16	8	33	1.78
2007033--2007231	74	2.7	74	81	4	249	40	16	20	23	1.91
2014228--2014263	2	18.0	2	94	0	63	50	2	0	47	1.15
2029083--2029126	21	2.0	22	91	4	72	61	6	0	31	1.22
2033654--2033715	28	2.2	29	85	5	92	50	17	6	25	1.70
2042887--2042994	29	3.7	30	73	18	95	66	0	0	32	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2042919--2042964	20	2.3	20	88	7	67	69	0	2	28	1.00
2043047--2043160	31	3.7	32	70	20	89	62	1	3	32	1.22
2043127--2043205	24	3.2	26	76	20	89	70	0	0	29	0.87
2043142--2043214	24	3.1	23	85	14	96	69	1	1	27	1.04
2043124--2043228	31	3.4	31	78	10	92	66	0	1	30	1.09
2043126--2043257	26	5.2	25	71	19	94	65	0	2	31	1.11
2043414--2043467	15	3.6	15	94	0	90	35	25	5	33	1.80
2045256--2045300	18	2.5	18	100	0	90	20	22	15	42	1.89
2045821--2045973	36	4.3	35	75	3	153	41	12	5	39	1.67
2045822--2045973	35	4.3	35	75	6	126	42	11	5	40	1.66
2045821--2045972	71	2.1	72	84	2	200	42	12	5	39	1.67
2051199--2051264	33	2.0	33	100	0	132	48	27	6	18	1.71
2055894--2055928	17	2.1	17	88	0	52	51	0	0	48	1.00
2056911--2057141	35	6.5	35	80	4	259	37	5	11	46	1.62
2056904--2057140	71	3.4	71	88	1	343	36	5	11	46	1.62
2057704--2057787	44	1.9	44	92	0	141	26	8	10	54	1.63
2061986--2062014	2	14.5	2	100	0	58	48	0	0	51	1.00
2072186--2072264	39	2.0	39	92	0	131	20	12	17	49	1.79
2072881--2072928	18	2.5	19	81	18	64	81	0	4	14	0.84
2072881--2072921	18	2.3	18	91	8	66	80	0	4	14	0.87
2084281--2084340	29	2.1	29	90	0	93	46	11	18	23	1.81
2087432--2087631	72	2.8	69	85	3	238	37	13	22	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2087838--2088011	71	2.5	71	75	9	183	29	18	26	25	1.98
2092845--2092876	16	1.9	17	93	6	57	31	34	6	28	1.82
2107372--2107440	6	10.7	6	73	18	50	73	0	1	24	0.91
2107360--2107402	21	2.0	21	90	0	68	67	0	0	32	0.91
2107363--2107439	12	6.6	12	73	19	65	70	0	1	28	0.96
2107360--2107424	20	3.2	20	86	6	78	67	0	1	30	1.00
2107372--2107445	25	2.8	26	79	18	82	72	0	1	25	0.92
2107475--2107559	33	2.5	33	81	9	84	65	1	5	27	1.22
2109291--2109341	25	2.0	25	84	7	66	35	1	0	62	1.06
2109290--2109358	27	2.5	27	79	13	70	42	1	0	56	1.08

Tables:   1   2   3   4   5   6   7   8   9