genome.fa.s8.2.7.7.80.10.50.1000.6.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_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  6  of  19  ( 2280 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)
1796938--1797005	27	2.5	27	71	4	66	33	16	17	32	1.92
1798531--1798605	15	5.0	15	76	11	64	74	0	0	25	0.82
1798533--1798595	5	13.0	5	77	15	53	76	0	0	23	0.79
1798533--1798603	13	5.4	13	75	13	65	76	0	0	23	0.79
1798534--1798605	8	9.6	8	76	13	57	76	0	0	23	0.79
1798638--1798722	33	2.5	32	81	9	82	68	0	3	28	1.06
1798755--1798828	21	3.5	22	82	14	93	67	0	0	32	0.91
1798769--1798835	6	11.0	6	73	20	50	68	0	0	31	0.90
1798677--1798905	113	2.0	114	94	0	406	62	1	3	33	1.19
1799054--1799095	15	2.8	15	88	0	66	30	26	9	33	1.88
1799854--1799913	29	2.1	29	87	6	86	58	6	3	31	1.40
1800752--1800785	15	2.4	14	90	5	50	79	0	0	20	0.73
1800758--1800790	17	1.9	17	88	11	50	81	0	0	18	0.68
1800755--1800805	25	2.0	25	85	7	68	76	0	0	23	0.79
1800754--1800805	22	2.2	22	83	16	61	76	0	0	23	0.78
1800859--1800902	19	2.3	19	96	0	79	6	38	18	36	1.77
1801544--1801576	14	2.3	15	89	5	50	6	12	0	81	0.85
1801901--1801940	18	2.2	18	86	0	53	32	0	15	52	1.43
1802623--1802694	22	3.3	22	74	3	65	45	13	8	31	1.74
1802796--1802823	2	14.0	2	100	0	56	50	0	0	50	1.00
1814369--1814630	84	3.1	84	79	3	249	37	16	25	20	1.93
1843400--1843444	21	2.1	23	88	12	69	28	0	8	62	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1860298--1860340	2	21.5	2	85	0	59	51	6	0	41	1.29
1865274--1865298	7	3.6	7	100	0	50	16	0	0	84	0.63
1875772--1875959	92	2.0	92	95	0	340	25	18	22	34	1.96
1884542--1884573	17	1.9	17	93	6	57	46	0	0	53	1.00
1888247--1888295	17	2.6	19	78	18	57	57	2	2	38	1.22
1888343--1888368	6	4.3	6	100	0	52	84	0	15	0	0.62
1888485--1888513	4	7.2	4	100	0	58	48	0	0	51	1.00
1909600--1909644	20	2.2	20	84	4	54	57	6	8	26	1.54
1916388--1916445	22	2.5	22	83	8	62	44	0	0	55	0.99
1926686--1926745	2	30.0	2	89	0	93	45	0	5	50	1.23
1941950--1941991	22	1.9	22	85	0	57	52	2	2	42	1.27
1941966--1942107	74	1.9	74	90	5	225	44	8	7	39	1.64
1954340--1954448	56	1.9	56	94	0	191	24	12	19	43	1.86
1973543--1973581	2	19.5	2	100	0	78	51	0	0	48	1.00
1975260--1975291	2	16.0	2	100	0	64	50	0	50	0	1.00
1988963--1989012	22	2.2	23	78	7	57	40	12	12	36	1.79
1988970--1989019	22	2.2	23	85	3	66	46	14	12	28	1.79
1988983--1989031	22	2.2	22	82	7	55	46	10	14	28	1.77
1990241--1990318	30	2.6	30	87	6	104	19	14	10	56	1.66
1990682--1990828	66	2.2	65	83	8	172	14	22	17	45	1.84
1990645--1990913	67	4.0	67	77	2	227	14	19	19	46	1.83
1990875--1990965	36	2.5	36	81	0	110	13	15	23	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2011994--2012052	27	2.2	27	82	11	68	44	1	1	52	1.21
2012022--2012131	42	2.6	42	81	7	107	43	2	1	51	1.26
2013957--2014005	20	2.4	21	76	13	57	38	0	32	28	1.57
2020138--2020345	48	4.3	48	78	3	186	30	11	15	42	1.82
2020316--2020373	28	2.1	28	93	0	98	29	12	17	41	1.85
2020336--2020851	48	10.6	48	74	6	344	28	11	18	41	1.85
2020344--2020809	194	2.4	194	82	2	533	28	11	19	40	1.86
2020488--2020851	194	1.9	192	81	6	441	28	10	19	41	1.84
2021081--2021109	6	4.8	6	100	0	58	51	0	17	31	1.45
2028403--2028441	13	3.0	13	84	0	51	61	2	0	35	1.10
2028802--2028907	29	3.7	28	79	2	95	33	18	11	35	1.87
2028831--2028911	28	2.9	28	83	1	99	33	20	11	34	1.88
2028913--2028970	28	2.1	28	81	9	66	32	13	15	37	1.87
2029602--2029631	2	15.0	2	92	0	51	53	0	0	46	1.00
2033508--2033543	2	18.0	2	100	0	72	50	0	0	50	1.00
2034151--2034224	28	2.6	29	80	4	80	31	17	9	41	1.81
2034518--2034717	77	2.8	70	78	12	206	35	14	10	40	1.80
2034581--2034744	77	2.1	77	87	2	231	37	16	7	37	1.78
2053640--2053664	13	1.9	13	100	0	50	40	32	12	16	1.84
2061440--2061525	42	2.0	42	86	0	118	17	16	29	37	1.91
2062431--2062670	88	2.7	88	92	1	383	40	16	17	25	1.90
2064710--2064794	29	2.9	29	87	3	100	43	10	28	17	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2064743--2064800	29	2.0	30	93	3	100	46	8	25	18	1.78
2065577--2065631	24	2.2	25	81	18	62	27	5	18	49	1.69
2068107--2068140	14	2.5	14	95	4	61	52	5	5	35	1.50
2068044--2068292	130	1.8	137	81	10	316	44	4	7	43	1.51
2069491--2069540	23	2.2	24	78	10	59	46	2	8	44	1.44
2069535--2069571	15	2.6	14	91	8	58	43	5	0	51	1.24
2069876--2069928	17	3.2	17	74	12	56	47	1	5	45	1.37
2073058--2073096	17	2.3	17	86	0	51	20	38	12	28	1.89
2090957--2091011	25	2.2	25	83	9	67	58	12	16	12	1.64
2098350--2098407	29	2.0	30	86	3	82	55	3	6	34	1.44
2101981--2102948	237	4.1	237	83	3	1045	36	19	13	30	1.90
2101969--2102962	473	2.1	470	82	4	1194	36	19	13	30	1.90
2104837--2104972	66	2.1	66	82	0	164	32	6	13	47	1.69
2106192--2106226	2	17.5	2	100	0	70	48	0	51	0	1.00
2108839--2108863	4	6.2	4	100	0	50	24	0	0	76	0.80
2113632--2113661	15	1.9	16	93	6	53	20	23	10	46	1.80
2118764--2118802	17	2.3	17	86	0	51	43	0	0	56	0.99
2124703--2124753	22	2.3	22	89	0	75	58	0	5	35	1.22
2125742--2125805	30	2.1	30	88	0	92	28	12	9	50	1.71
2133064--2133094	15	2.1	15	93	0	53	35	0	9	54	1.33
2141380--2141548	77	2.2	77	81	6	198	48	8	13	30	1.71
2147347--2147421	34	2.2	34	85	0	96	20	17	25	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2147271--2147421	76	2.0	76	79	7	164	20	15	25	38	1.92
2152166--2152200	15	2.3	15	100	0	70	40	5	8	45	1.58
2152199--2152267	29	2.5	28	80	17	83	47	2	11	37	1.55
2153014--2153153	73	1.9	74	95	1	255	30	25	11	32	1.91
2184392--2184503	34	3.3	33	90	5	161	27	20	19	32	1.97
2190667--2190723	30	1.9	30	88	0	87	31	12	17	38	1.87
2191248--2191287	17	2.4	17	83	4	55	20	5	7	67	1.34
2212482--2212587	21	5.2	20	73	15	76	38	1	0	59	1.08
2212493--2212596	21	5.1	21	74	13	85	37	1	0	60	1.08
2212488--2212560	26	2.8	26	85	8	87	32	1	0	65	1.01
2212528--2212634	37	2.9	37	75	20	98	41	1	0	56	1.17
2212622--2212676	27	2.0	26	82	6	65	47	0	3	49	1.19
2212664--2212714	26	1.9	27	84	11	70	35	3	5	54	1.43
2222874--2222985	32	3.7	29	76	15	102	57	4	3	34	1.36
2222878--2222985	30	3.5	31	83	8	125	56	4	3	35	1.38
2222878--2222985	29	3.6	29	85	6	126	56	4	3	35	1.38
2226252--2226400	72	2.1	66	82	14	167	61	1	4	32	1.23
2228846--2228903	31	1.9	31	86	6	84	77	1	20	0	0.86
2228848--2228889	22	1.9	22	85	0	57	80	2	16	0	0.81
2261828--2261870	15	2.9	15	89	0	68	30	48	9	11	1.71
2261812--2261870	30	2.0	30	86	0	82	28	45	10	15	1.78
2261880--2261920	21	2.0	21	100	0	82	34	39	4	21	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2265183--2265220	15	2.5	15	83	12	51	50	2	0	47	1.15
2274446--2274491	20	2.3	20	100	0	92	43	13	6	36	1.69
2279546--2279573	13	2.2	13	100	0	56	32	0	46	21	1.52
2283799--2283830	15	2.0	17	88	11	50	40	0	0	59	0.97
2289417--2289516	32	3.2	32	64	25	77	29	19	11	41	1.85
2289418--2289541	62	2.0	62	95	0	221	29	20	10	38	1.86
2294094--2294173	38	2.1	38	95	2	144	31	11	12	45	1.77
2296610--2296665	23	2.4	23	78	0	67	55	23	0	21	1.44
2297879--2297975	28	3.3	29	79	12	76	21	15	6	56	1.61
2308674--2308781	53	2.0	53	87	3	155	28	6	15	49	1.70

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19