genome.fa.s7952.2.7.7.80.10.50.1000.10.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: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3169409

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

This is table  10  of  16  ( 1872 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)
1875281--1875368	43	2.0	43	97	0	167	14	13	22	48	1.79
1875781--1875827	18	2.6	18	100	0	94	25	14	36	23	1.93
1879213--1879548	8	44.8	8	73	18	233	40	2	6	50	1.43
1879250--1879453	31	6.7	31	77	17	214	39	3	7	50	1.47
1879178--1879559	84	4.8	81	85	9	466	40	3	5	50	1.41
1879356--1879559	37	5.1	37	79	17	219	40	3	5	50	1.42
1879178--1879551	8	49.2	8	68	19	133	40	2	5	50	1.41
1879187--1879590	14	29.9	13	70	18	167	40	3	5	50	1.44
1879178--1879594	42	10.3	41	75	16	345	40	3	5	50	1.43
1881799--1882157	172	2.1	173	90	1	560	37	18	4	39	1.72
1882156--1882238	40	2.1	40	100	0	166	37	24	7	31	1.82
1882655--1882698	23	1.9	23	100	0	88	25	40	25	9	1.84
1882702--1882765	22	2.9	22	88	0	101	15	34	20	29	1.94
1882787--1882867	34	2.4	34	97	0	153	34	25	22	17	1.95
1886941--1886970	13	2.2	14	94	5	53	60	0	0	40	0.97
1888385--1888481	3	33.0	3	84	2	117	64	0	3	31	1.09
1888397--1888495	12	8.5	11	80	12	58	63	0	5	31	1.16
1888730--1889509	114	6.8	113	92	2	1233	28	19	13	37	1.90
1888728--1889509	341	2.3	340	93	2	1309	28	19	13	37	1.90
1890061--1890259	83	2.4	83	98	0	380	36	22	13	28	1.91
1890209--1890637	52	8.2	52	93	2	711	37	22	14	24	1.92
1891259--1891296	16	2.4	16	82	8	51	57	7	5	28	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891614--1891696	12	7.1	12	76	16	70	2	18	0	79	0.84
1891618--1891692	28	2.7	26	82	12	87	2	17	0	80	0.84
1891614--1891691	5	15.6	5	75	19	74	2	17	0	79	0.84
1891614--1891696	19	4.3	19	70	22	66	2	18	0	79	0.84
1903756--1903810	25	2.2	25	83	3	65	1	20	10	67	1.30
1904273--1904371	3	33.0	3	82	4	110	65	0	3	31	1.08
1904289--1904386	12	8.9	11	74	18	55	63	0	5	31	1.16
1904464--1904563	48	2.1	48	100	0	200	37	12	12	39	1.79
1908928--1908978	20	2.6	20	84	3	77	56	3	1	37	1.29
1913287--1913312	10	2.6	10	100	0	52	69	11	11	7	1.37
1914042--1914072	15	2.1	15	93	0	53	25	6	35	32	1.82
1916198--1916271	30	2.5	30	88	0	112	43	4	12	40	1.61
1918072--1918301	112	2.1	112	86	3	320	43	11	11	33	1.76
1919110--1919172	23	2.7	23	92	0	99	38	20	4	36	1.74
1919590--1919652	23	2.7	23	92	0	99	38	20	4	36	1.74
1920070--1920128	23	2.6	23	88	0	82	40	16	5	37	1.71
1920551--1920609	23	2.6	23	88	0	82	40	16	5	37	1.71
1918704--1922283	482	7.5	482	98	0	6830	40	11	7	40	1.69
1918704--1922283	960	3.7	962	98	0	6876	40	11	7	40	1.69
1921030--1921088	23	2.6	23	88	0	82	40	16	5	37	1.71
1921507--1921569	23	2.7	23	92	0	99	38	20	4	36	1.74
1921989--1922051	23	2.7	23	92	0	99	38	20	4	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1924957--1925033	40	1.9	39	84	2	100	19	29	32	18	1.95
1929213--1929423	64	3.2	64	80	8	205	25	15	26	32	1.95
1929324--1929370	19	2.6	17	83	10	58	23	17	31	27	1.96
1929384--1929423	21	1.9	21	94	0	71	22	15	30	32	1.94
1931975--1932054	24	3.5	23	75	14	85	28	23	25	22	1.99
1931952--1932068	44	2.7	43	75	11	130	25	21	26	26	1.99
1937851--1937899	19	2.7	17	84	9	53	26	20	28	24	1.99
1937976--1938026	19	2.7	19	85	8	70	25	15	35	23	1.94
1937851--1938034	63	2.9	64	81	5	205	27	16	26	29	1.97
1938528--1938614	35	2.5	34	80	12	97	54	10	8	27	1.62
1940943--1940981	18	2.2	18	95	4	71	64	2	0	33	1.08
1942361--1942415	26	2.1	26	86	10	76	47	0	1	50	1.11
1942367--1942420	24	2.3	21	75	25	54	42	0	1	55	1.10
1942406--1942442	16	2.2	18	90	9	60	59	0	2	37	1.12
1942438--1943176	347	2.2	338	90	4	1170	43	5	6	43	1.55
1946534--1946670	31	4.4	31	95	0	211	54	14	11	19	1.71
1948926--1948966	18	2.3	18	91	4	66	29	4	2	63	1.28
1951038--1951076	18	2.2	18	85	0	51	30	17	35	15	1.91
1951190--1951261	26	3.0	24	68	27	62	26	6	4	62	1.39
1958376--1958413	20	1.9	20	88	0	58	21	26	10	42	1.85
1959506--1959630	60	2.1	60	80	8	139	48	4	12	36	1.59
1963234--1963275	21	2.0	22	90	4	68	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1966349--1966376	12	2.3	12	100	0	56	57	21	0	21	1.41
1967776--1967817	10	4.3	10	77	17	52	28	11	16	42	1.84
1967789--1967834	19	2.4	19	92	0	74	28	17	8	45	1.78
1985085--1985725	81	7.9	81	91	0	998	35	10	21	32	1.88
1987670--1987720	25	2.0	24	81	7	57	54	1	7	35	1.40
1988542--1988601	31	1.9	31	83	6	77	20	16	11	51	1.75
1989899--1989926	7	4.0	7	100	0	56	28	14	14	42	1.84
1990257--1990282	2	13.0	2	100	0	52	0	50	0	50	1.00
1992226--1992301	24	3.2	24	100	0	152	15	39	27	17	1.90
1992320--1992638	2	162.5	2	77	3	182	0	64	0	35	0.94
1992320--1992637	8	41.8	8	78	13	234	0	64	0	35	0.94
1992713--1992747	2	17.5	2	93	0	61	2	48	0	48	1.16
1992607--1992821	109	2.0	109	99	0	421	16	27	9	46	1.77
1994169--1994207	20	1.9	21	85	15	55	28	20	41	10	1.85
2005485--2005573	45	1.9	47	90	4	146	28	10	23	38	1.87
2015161--2015194	12	2.8	12	86	4	50	85	0	11	2	0.71
2015200--2015274	18	4.3	17	80	12	89	70	0	17	12	1.16
2015215--2015270	10	6.0	10	71	21	50	69	0	19	10	1.17
2016692--2017159	55	8.6	55	83	5	517	29	15	25	30	1.96
2022260--2022305	21	2.2	21	84	7	58	52	4	8	34	1.52
2023149--2023189	21	2.0	21	90	0	64	53	19	2	24	1.57
2029676--2029758	41	2.0	41	86	4	114	37	15	18	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2030057--2030290	81	2.9	81	76	11	228	31	16	19	32	1.94
2030664--2030708	21	2.2	20	84	11	56	48	2	2	46	1.26
2033377--2033440	30	2.1	31	94	2	112	21	4	35	37	1.75
2034132--2034201	31	2.3	31	85	9	90	38	7	20	34	1.80
2040821--2040845	2	12.5	2	100	0	50	48	0	0	52	1.00
2046149--2046177	5	5.8	5	100	0	58	62	0	37	0	0.96
2047891--2047928	20	1.9	20	94	0	67	39	10	26	23	1.87
2047891--2047935	20	2.4	19	85	7	65	40	8	26	24	1.84
2049794--2049866	2	38.5	2	78	10	73	45	1	0	53	1.09
2049801--2049879	20	3.8	20	77	12	63	41	2	1	54	1.22
2051731--2051986	100	2.6	99	89	4	374	33	17	17	31	1.94
2052907--2053330	120	3.5	120	84	2	544	33	25	16	25	1.95
2053158--2053775	260	2.4	260	92	0	993	33	24	17	24	1.96
2054185--2054211	11	2.5	11	100	0	54	29	0	7	62	1.22
2055253--2055348	12	8.3	11	71	11	59	21	6	1	70	1.15
2055267--2055309	3	14.7	3	92	4	70	27	0	0	72	0.85
2055255--2055346	23	4.0	23	81	5	96	22	6	1	69	1.18
2055402--2055463	20	3.0	20	81	9	72	20	4	0	74	1.00
2055393--2055453	26	2.4	26	86	2	79	19	4	0	75	0.98
2055425--2055470	22	2.2	20	84	7	56	26	2	0	71	0.97
2055421--2055488	27	2.5	26	77	13	66	23	2	0	73	0.97
2055511--2055609	2	51.5	2	80	15	93	43	2	1	53	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2055840--2055868	12	2.3	13	94	5	51	24	3	0	72	1.00
2058225--2058253	2	14.5	2	100	0	58	48	0	0	51	1.00
2071638--2071703	32	2.0	32	88	5	96	69	3	6	21	1.24
2072289--2072370	35	2.3	35	100	0	164	46	31	2	19	1.63
2074372--2074396	3	8.3	3	100	0	50	32	0	0	68	0.90
2075072--2075119	16	2.9	16	81	6	60	70	10	18	0	1.15
2076080--2076159	30	2.7	29	83	12	101	12	12	15	60	1.60
2078022--2078059	18	2.1	18	95	0	67	0	10	47	42	1.38
2078152--2078334	21	8.8	21	76	12	182	38	19	19	22	1.93
2078145--2078269	40	3.1	40	95	0	214	37	18	20	24	1.94

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