genome.fa.s4.2.7.7.80.10.50.1000.6.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  6  of  26  ( 3073 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)
1963279--1963324	17	2.7	17	96	0	83	41	4	8	45	1.55
1963506--1963540	15	2.4	14	86	9	52	2	31	2	62	1.24
1964088--1964393	27	11.1	27	74	8	226	38	9	13	38	1.77
1971094--1971129	15	2.4	15	100	0	72	41	5	0	52	1.24
1972365--1972465	23	4.4	22	82	9	123	27	12	35	23	1.92
1972327--1972601	127	2.2	127	81	1	309	28	14	31	25	1.95
1972538--1972592	23	2.4	23	81	0	65	29	14	30	25	1.95
1972620--1972687	23	3.0	23	80	0	82	30	10	33	25	1.89
1972733--1972792	23	2.6	22	79	7	66	38	13	25	23	1.91
1972819--1972878	23	2.6	23	86	0	84	31	10	31	26	1.89
1972608--1972878	104	2.6	102	77	9	278	31	11	29	27	1.91
1973036--1973209	79	2.2	78	81	1	186	30	20	19	29	1.97
1973180--1973452	72	3.8	71	77	9	216	31	19	21	27	1.97
1973180--1973452	143	1.9	141	80	7	309	31	19	21	27	1.97
1982321--1982358	19	2.0	19	89	0	58	68	0	0	31	0.90
1982967--1983032	33	2.0	33	96	0	123	53	9	16	21	1.71
1987096--1987184	30	3.0	30	89	0	124	29	11	22	37	1.89
1988144--1988173	16	1.9	16	93	6	53	13	6	13	66	1.43
1989422--1989584	42	3.9	42	84	3	202	23	15	22	38	1.93
1989423--1989584	84	1.9	85	86	6	231	24	16	21	38	1.93
1992530--1992575	21	2.2	21	96	0	83	34	10	30	23	1.89
1992570--1992598	12	2.4	12	100	0	58	20	0	55	24	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1995871--1996005	28	4.6	29	72	14	116	38	7	9	44	1.65
1995892--1996034	28	5.0	27	77	10	124	37	8	9	44	1.68
1995871--1996034	59	2.8	59	80	5	174	37	8	9	44	1.68
1995871--1996044	29	6.0	29	76	8	140	37	9	9	43	1.70
1998029--1998061	16	2.1	16	94	0	57	18	27	6	48	1.71
2002617--2002682	34	2.0	34	93	3	116	48	6	6	39	1.53
2003931--2004091	59	2.8	58	82	6	184	40	8	9	42	1.67
2003932--2004092	28	5.6	28	77	6	135	40	8	8	42	1.65
2005584--2005654	21	3.1	23	78	10	74	35	7	12	45	1.70
2005591--2005657	23	3.0	22	76	8	73	37	5	11	44	1.66
2019107--2019139	17	1.9	17	88	11	50	42	15	3	39	1.62
2019280--2019389	29	3.8	29	86	6	98	35	15	9	40	1.79
2019308--2019386	29	2.7	29	92	3	124	32	15	10	41	1.80
2024024--2024065	22	2.0	21	85	4	57	33	14	14	38	1.86
2024106--2024357	29	9.0	28	79	9	255	36	13	9	40	1.77
2024135--2024349	57	3.9	57	83	7	291	37	13	8	40	1.75
2024115--2024349	86	2.8	83	81	9	264	37	13	9	39	1.77
2024275--2024316	22	1.9	22	90	0	66	30	11	7	50	1.66
2024186--2024345	51	3.0	51	85	7	221	37	12	7	42	1.71
2043141--2043174	17	2.1	16	88	5	50	29	0	11	58	1.33
2045043--2045181	36	3.9	35	78	8	145	34	21	12	31	1.90
2047904--2047964	26	2.2	28	85	11	99	45	6	19	27	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2050726--2051024	154	1.9	151	83	8	377	45	6	15	32	1.71
2050978--2051099	60	2.1	58	81	3	136	44	7	12	36	1.70
2051671--2051700	3	10.0	3	92	0	51	63	0	3	33	1.11
2054077--2054128	26	2.0	27	85	7	72	71	7	15	5	1.29
2064221--2064258	17	2.2	17	95	0	67	18	13	10	57	1.63
2074265--2074321	14	4.0	14	74	17	55	40	1	5	52	1.34
2075935--2075975	21	2.0	21	85	0	55	51	19	2	26	1.59
2081105--2081207	33	3.1	34	83	6	140	32	14	16	36	1.89
2092480--2092504	2	12.5	2	100	0	50	48	0	0	52	1.00
2094092--2094154	31	2.0	31	84	6	83	34	1	0	63	1.04
2094142--2094203	30	2.0	31	87	3	90	38	4	1	54	1.31
2094142--2094203	31	2.1	29	84	6	79	38	4	1	54	1.31
2108093--2108125	2	16.5	2	100	0	66	0	51	0	48	1.00
2124680--2124723	21	2.0	22	91	4	72	31	0	6	61	1.22
2129021--2129076	21	2.7	21	77	0	58	21	14	17	46	1.84
2131171--2131217	19	2.6	18	78	15	51	19	21	4	55	1.60
2134611--2134980	170	2.2	170	79	3	388	34	14	11	37	1.82
2139776--2139960	74	2.5	74	82	0	228	41	17	17	23	1.90
2145632--2145739	38	2.8	38	84	5	130	34	9	9	47	1.68
2146435--2146515	36	2.3	36	85	6	105	27	16	19	37	1.93
2149353--2149401	18	2.6	19	81	15	57	73	4	18	4	1.15
2150376--2150408	13	2.5	13	90	9	50	45	3	12	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2153481--2153517	20	1.9	18	89	10	56	21	16	5	56	1.59
2155654--2155725	30	2.4	30	83	2	92	30	6	4	58	1.43
2158575--2158601	14	1.9	14	100	0	54	37	0	14	48	1.45
2162046--2162101	29	2.0	29	82	3	69	30	8	1	58	1.39
2164704--2164730	2	13.5	2	100	0	54	48	0	51	0	1.00
2166510--2166538	13	2.1	14	93	6	51	13	24	10	51	1.72
2174537--2174570	15	2.3	15	95	5	61	20	0	0	79	0.73
2175491--2175557	35	1.9	35	84	0	89	37	11	16	34	1.85
2176855--2176883	2	14.5	2	100	0	58	51	0	0	48	1.00
2177342--2177399	28	2.1	26	84	12	71	29	10	15	44	1.79
2179688--2179742	23	2.2	26	87	9	80	41	1	1	54	1.21
2179874--2179921	22	2.2	23	77	7	55	50	4	6	39	1.47
2180545--2180584	11	3.5	11	86	6	62	47	0	2	50	1.14
2180544--2180584	12	3.5	12	86	6	57	48	0	2	48	1.14
2180751--2180802	24	2.2	24	78	21	58	46	5	3	44	1.45
2180957--2181008	26	1.9	28	84	7	72	26	15	15	42	1.87
2181153--2181205	23	2.2	24	90	3	81	26	9	20	43	1.82
2181154--2181198	12	3.9	11	81	18	56	20	11	24	44	1.83
2184653--2184715	14	4.5	14	80	4	65	39	25	0	34	1.56
2199643--2199667	13	1.9	13	100	0	50	40	8	0	52	1.31
2211414--2211458	19	2.4	18	85	3	54	26	0	0	73	0.84
2211426--2211462	6	6.0	6	96	3	65	18	0	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2211426--2211496	12	5.8	12	72	22	51	22	0	0	77	0.77
2221763--2221823	5	12.0	5	91	3	86	0	22	1	75	0.89
2222076--2222100	7	3.6	7	100	0	50	88	0	0	12	0.53
2227466--2227594	53	2.4	51	73	15	118	57	3	8	31	1.44
2229084--2229121	17	2.2	18	90	4	60	50	0	0	50	1.00
2229084--2229129	17	2.7	17	80	12	51	52	0	0	47	1.00
2231446--2231478	13	2.5	13	90	0	57	33	0	3	63	1.10
2237936--2238552	314	2.0	302	88	4	921	36	18	13	31	1.90
2239647--2239700	27	2.0	27	100	0	108	44	22	11	22	1.84
2240142--2240179	12	3.5	11	86	10	51	7	89	2	0	0.57
2242395--2242451	21	2.7	21	86	0	69	26	22	17	33	1.96
2248087--2248157	36	2.0	36	94	0	124	28	21	14	36	1.92
2257542--2257583	6	7.2	6	79	15	52	0	19	0	80	0.70
2257542--2257583	17	2.4	18	88	4	59	0	19	0	80	0.70
2257969--2258722	254	3.0	253	84	3	971	31	17	21	29	1.96
2258920--2258965	7	6.9	7	82	9	51	69	0	2	28	1.00
2260405--2260467	23	2.8	22	88	9	83	68	0	0	31	0.90
2260404--2260469	20	3.3	19	77	14	62	68	0	0	31	0.90
2281957--2282002	20	2.2	21	85	11	60	47	10	19	21	1.80
2283019--2283095	22	3.4	22	72	3	64	45	5	1	48	1.33
2289067--2289095	3	9.7	3	100	0	58	65	0	0	34	0.93
2300838--2300868	11	2.8	11	100	0	62	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)
2303008--2303097	36	2.7	32	79	12	108	8	37	4	48	1.55
2303025--2303102	36	2.2	36	92	0	129	10	37	2	50	1.50
2314210--2314255	15	3.1	15	93	3	76	19	36	4	39	1.72
2316991--2317045	25	2.2	25	90	0	83	27	27	16	29	1.97
2333873--2333909	19	1.9	19	88	0	56	59	10	0	29	1.31
2337648--2337720	34	2.2	33	83	14	87	58	4	4	32	1.36
2338154--2338215	27	2.3	27	82	0	79	29	16	14	40	1.88
2338168--2338219	27	1.9	27	96	0	95	26	11	19	42	1.85
2338730--2338765	19	1.9	18	94	0	54	47	0	30	22	1.52
2338927--2338966	14	3.0	14	79	20	50	52	7	5	35	1.51

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