genome.fa.s18.2.7.7.80.10.50.1000.6.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_018397271.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_89.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4184555

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  6  of  11  ( 1249 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)
1864512--1864546	18	1.9	18	88	0	52	60	0	0	40	0.97
1867181--1867211	11	2.9	11	95	4	55	45	0	0	54	0.99
1868636--1868691	2	27.0	2	89	7	85	48	3	1	46	1.30
1870910--1870952	3	14.3	3	95	0	77	0	37	0	62	0.95
1874930--1874971	17	2.6	16	88	7	66	38	0	0	61	0.96
1876756--1876788	16	2.1	16	94	0	57	36	3	6	54	1.41
1881469--1881590	35	3.5	34	81	8	138	36	28	12	22	1.91
1895495--1895562	3	22.7	3	96	0	127	30	0	1	67	0.99
1906071--1906190	58	2.1	57	90	1	186	36	16	9	37	1.81
1917733--1917853	29	4.2	28	82	8	143	42	10	11	35	1.76
1918114--1918146	17	1.9	18	88	11	52	39	3	15	42	1.62
1919619--1919653	15	2.2	16	90	5	54	65	8	0	25	1.21
1925150--1925299	68	2.2	68	86	2	203	36	11	19	33	1.87
1925150--1925328	68	2.6	66	81	8	189	36	11	19	32	1.87
1925493--1925594	32	3.2	31	75	4	105	30	22	24	22	1.99
1930123--1930183	5	11.4	5	77	16	52	70	0	1	27	0.97
1930127--1930795	54	11.9	54	65	24	130	63	0	2	33	1.13
1930220--1930395	32	5.2	32	69	21	112	65	0	1	32	1.04
1930222--1930410	25	7.5	24	69	18	84	66	0	1	32	1.03
1930128--1930270	41	3.6	38	72	16	119	67	1	2	29	1.11
1930120--1930709	108	5.7	95	77	15	264	63	0	2	32	1.13
1930233--1930801	111	5.2	109	86	10	767	62	0	2	34	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1930335--1930401	18	3.5	19	72	21	59	67	0	0	32	0.91
1930347--1930410	5	11.2	6	79	15	57	70	0	0	29	0.88
1930216--1930410	70	2.7	68	73	20	182	66	0	1	32	1.03
1930335--1930402	21	3.5	20	77	18	72	67	0	0	32	0.91
1930442--1930715	15	19.9	14	66	22	111	62	0	2	34	1.10
1930381--1930710	29	10.8	30	65	22	93	62	0	2	33	1.14
1930457--1930739	28	10.6	25	68	23	118	63	0	2	33	1.09
1930256--1930801	218	2.5	217	88	10	835	62	0	2	34	1.13
1930675--1930740	6	11.0	6	74	20	50	68	0	0	31	0.90
1930950--1931008	15	3.9	15	84	0	64	32	27	6	33	1.83
1937333--1937441	41	2.6	42	76	12	98	37	4	2	55	1.35
1937418--1937469	17	3.1	16	75	8	50	36	1	7	53	1.41
1937757--1937816	16	3.9	15	80	6	66	50	1	1	46	1.21
1937865--1937920	25	2.3	23	77	19	60	35	1	0	62	1.06
1939811--1939860	24	2.1	24	96	0	91	36	10	20	34	1.86
1942440--1942557	40	3.1	39	72	16	113	65	2	5	26	1.28
1943617--1943804	93	2.0	93	96	0	349	38	13	19	27	1.90
1944022--1944067	19	2.4	19	85	0	56	60	0	0	39	0.97
1959804--1959833	2	15.0	2	100	0	60	50	0	0	50	1.00
1959833--1959857	2	12.5	2	100	0	50	52	48	0	0	1.00
1975829--1975870	21	2.2	18	87	12	57	45	11	4	38	1.62
1983705--1983752	20	2.4	20	89	0	78	10	20	12	56	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1988708--1988757	11	4.5	11	76	18	50	4	18	0	78	0.91
1988709--1988757	23	2.2	21	82	7	53	4	18	0	77	0.92
1994702--1994735	12	2.8	12	90	0	50	17	8	14	58	1.61
1996703--1996729	11	2.5	11	100	0	54	48	0	18	33	1.49
1999800--1999834	18	1.9	18	88	0	52	11	20	14	54	1.70
2001946--2001991	16	2.7	16	83	12	56	56	4	2	36	1.31
2006924--2007022	33	3.1	31	75	7	99	15	12	20	52	1.74
2012482--2012522	14	2.8	15	77	7	57	75	7	4	12	1.16
2013659--2013700	12	3.8	11	81	9	50	59	4	0	35	1.19
2014232--2014381	54	2.8	53	82	4	176	32	22	19	26	1.97
2017413--2017443	16	1.9	16	93	0	53	29	9	41	19	1.83
2018368--2018399	12	2.8	11	90	9	55	18	18	25	37	1.94
2029971--2030012	15	2.8	15	85	0	57	50	2	0	47	1.14
2034673--2034700	2	14.0	2	100	0	56	50	0	0	50	1.00
2036713--2036767	26	2.1	26	93	0	92	32	20	9	38	1.84
2037537--2037573	16	2.2	17	86	13	51	35	27	0	37	1.57
2039839--2039891	26	2.0	26	85	0	70	30	16	13	39	1.87
2043891--2043941	25	2.0	25	85	11	68	58	33	1	5	1.33
2047986--2048021	12	2.9	13	84	16	58	0	41	16	41	1.48
2048673--2048716	21	2.0	22	86	4	63	61	9	0	29	1.27
2068869--2068919	2	25.5	2	100	0	102	49	0	0	50	1.00
2071786--2071840	23	2.3	24	84	3	76	29	7	0	63	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2072826--2072871	15	3.1	15	84	3	58	19	0	2	78	0.86
2073012--2073041	16	1.9	16	93	6	53	30	0	6	63	1.20
2074494--2074521	2	14.0	2	100	0	56	50	0	0	50	1.00
2075748--2075791	21	2.0	23	82	8	56	38	13	11	36	1.81
2077395--2077420	2	13.0	2	100	0	52	50	0	0	50	1.00
2081464--2081529	35	1.9	32	82	17	80	63	0	3	33	1.10
2081420--2081564	26	6.2	23	64	23	54	67	0	2	28	1.09
2081511--2081660	33	4.4	34	68	24	102	64	0	4	31	1.17
2081420--2081620	78	2.7	73	78	16	191	65	0	3	29	1.17
2081505--2081620	39	3.1	38	72	17	109	64	0	4	30	1.18
2081416--2081595	15	12.1	14	69	22	93	66	0	3	29	1.11
2081810--2081854	15	3.0	15	90	0	72	33	28	6	31	1.83
2085070--2085094	2	12.5	2	100	0	50	52	0	0	48	1.00
2097799--2097829	2	15.5	2	100	0	62	51	0	0	48	1.00
2098930--2098969	19	2.2	17	86	8	53	50	2	0	47	1.14
2099276--2099339	30	2.1	30	85	5	85	67	3	6	23	1.28
2104072--2104120	20	2.5	20	100	0	98	36	12	14	36	1.83
2110292--2110358	20	3.3	20	75	8	55	59	11	1	26	1.41
2113115--2113156	13	3.2	13	74	12	50	38	2	28	30	1.70
2113115--2113167	26	2.0	26	88	0	79	39	5	24	30	1.78
2115869--2116323	86	5.3	86	91	1	740	45	6	7	40	1.58
2119891--2119961	8	8.8	8	77	11	56	0	40	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2119908--2119948	19	2.2	19	90	0	64	0	36	0	63	0.95
2119871--2119965	27	3.4	27	80	12	104	1	37	0	61	1.03
2119914--2119990	19	3.9	20	78	11	88	0	33	2	63	1.08
2119914--2119983	11	6.0	12	75	11	65	0	32	1	65	1.01
2119876--2119983	31	3.7	31	77	12	111	0	36	0	62	1.01
2136316--2136550	49	4.9	49	73	8	169	37	21	8	31	1.85
2146579--2146608	15	2.0	15	93	0	51	26	0	10	63	1.26
2155546--2155895	182	1.9	182	87	1	513	28	13	19	38	1.89
2171540--2171576	11	3.5	11	79	20	51	21	0	13	64	1.27
2171520--2171576	21	2.8	21	80	15	66	28	0	10	61	1.29
2172958--2172996	21	1.9	20	84	5	51	25	7	5	61	1.44
2192665--2192805	28	4.9	28	78	6	129	41	10	12	35	1.77
2192759--2192828	28	2.5	28	81	9	81	40	12	11	35	1.80
2192978--2193010	17	1.9	17	88	11	50	39	3	15	42	1.62
2194032--2194065	17	2.1	17	88	5	52	41	2	0	55	1.15
2200568--2200725	57	2.7	56	84	8	192	42	9	13	34	1.76
2200555--2200725	28	5.9	28	83	8	175	40	10	13	35	1.79
2209152--2209196	10	4.3	11	81	18	60	84	6	8	0	0.78
2209154--2209197	22	2.0	23	86	8	65	81	6	11	0	0.86
2212746--2212843	36	2.7	36	77	0	88	30	21	15	32	1.94
2212778--2212859	36	2.3	36	82	4	94	30	20	15	32	1.94
2220631--2220667	18	2.1	18	89	0	56	13	24	27	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2231554--2231611	25	2.4	25	85	2	73	24	29	17	29	1.97
2232008--2232032	2	12.5	2	100	0	50	48	0	0	52	1.00
2232854--2232914	8	7.5	8	77	15	63	0	34	6	59	1.24
2232853--2232914	32	1.9	32	87	6	90	0	35	6	58	1.24
2236107--2236494	29	13.4	29	78	6	358	38	10	12	38	1.78
2249926--2249969	22	2.0	22	95	0	79	22	25	40	11	1.87
2256187--2256268	30	2.8	30	96	3	150	20	14	21	42	1.88
2261580--2261639	20	3.2	19	72	15	61	63	6	0	30	1.20
2268337--2268369	17	1.9	17	88	11	50	33	24	6	36	1.80
2270405--2270449	21	2.1	21	84	8	56	55	2	13	28	1.50

Tables:   1   2   3   4   5   6   7   8   9   10   11