genome.fa.s8105.2.7.7.80.10.50.1000.10.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   27   28   29   30   

This is table  10  of  30  ( 3521 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)
1863716--1863746	12	2.6	12	94	0	53	61	3	6	29	1.37
1865432--1865484	16	3.2	16	72	5	52	41	26	1	30	1.66
1865657--1865725	23	3.0	23	83	8	95	27	26	26	20	1.99
1865741--1865953	103	2.1	103	94	0	372	36	23	13	26	1.92
1870877--1870940	23	2.8	23	85	0	83	28	25	25	21	1.99
1870956--1871168	103	2.1	103	95	0	381	36	23	14	26	1.93
1877017--1877043	13	2.1	13	100	0	54	37	14	25	22	1.93
1883496--1883582	45	1.9	46	90	2	140	31	11	14	42	1.82
1883591--1883642	19	2.6	21	78	12	72	40	5	15	38	1.71
1884419--1884459	14	2.9	14	81	3	55	21	29	21	26	1.99
1886786--1886868	24	3.5	24	74	12	89	22	12	19	45	1.83
1888947--1888989	13	3.3	13	86	0	59	18	9	20	51	1.74
1889514--1889539	13	2.0	13	100	0	52	46	7	23	23	1.78
1892697--1892728	2	16.0	2	100	0	64	0	50	0	50	1.00
1898250--1898349	36	2.8	35	79	5	94	28	16	16	40	1.89
1898291--1898369	36	2.2	36	84	4	97	32	21	8	36	1.85
1900599--1900626	7	4.0	7	100	0	56	57	0	42	0	0.99
1901180--1901221	22	1.9	22	95	0	75	28	16	9	45	1.79
1907807--1907855	17	3.1	15	80	13	62	63	2	0	34	1.06
1907836--1907906	20	3.4	20	76	16	72	66	2	0	30	1.06
1910556--1910599	17	2.6	17	77	0	52	45	25	11	18	1.82
1913591--1913635	22	2.0	22	100	0	90	26	4	13	55	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1913595--1913666	22	3.0	24	82	11	69	27	6	15	50	1.69
1913701--1913766	31	2.3	28	84	10	80	62	4	0	33	1.16
1913943--1914002	25	2.4	25	77	0	66	36	11	16	35	1.85
1914335--1914367	16	2.1	16	94	5	59	24	0	0	75	0.80
1914497--1914544	21	2.2	22	85	3	62	39	29	10	20	1.86
1914689--1914740	20	2.6	20	96	0	95	38	26	13	21	1.90
1914730--1914828	21	4.8	20	72	6	72	36	23	19	21	1.95
1914795--1914988	20	9.6	20	81	5	221	35	25	19	19	1.95
1914795--1914988	60	3.2	60	83	0	253	35	25	19	19	1.95
1915369--1915476	33	3.3	33	89	0	171	10	24	19	46	1.80
1915393--1915474	14	4.9	18	64	26	54	9	24	20	45	1.81
1915412--1915468	14	3.7	14	77	20	60	8	26	22	42	1.83
1917172--1917553	185	2.1	186	98	0	748	22	12	18	46	1.83
1917172--1917551	93	4.1	93	98	0	744	22	12	18	46	1.83
1917595--1917723	19	7.3	19	75	17	125	45	28	17	8	1.77
1917631--1917723	33	2.8	32	91	4	150	46	27	18	7	1.76
1917595--1917723	52	2.5	52	74	14	140	45	28	17	8	1.77
1917719--1917853	19	7.6	19	76	16	137	10	19	24	45	1.81
1917741--1917797	14	3.7	14	77	20	60	8	21	24	45	1.80
1917724--1917816	33	2.8	33	98	0	177	9	20	22	47	1.79
1919670--1919742	38	1.9	38	97	0	137	28	1	16	53	1.51
1919665--1919729	19	3.4	19	64	8	51	24	1	15	58	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1919724--1919759	14	2.6	14	95	0	63	33	0	22	44	1.53
1919866--1919967	19	5.6	19	84	13	151	44	17	23	14	1.86
1919996--1920321	19	18.4	19	80	15	405	14	20	17	47	1.82
1919974--1920293	52	6.0	52	94	4	550	14	21	16	46	1.83
1919996--1920321	71	4.6	72	82	13	389	14	20	17	47	1.82
1919974--1920293	161	2.0	157	93	3	552	14	21	16	46	1.83
1920015--1920321	33	8.8	33	80	12	280	14	20	17	47	1.82
1922628--1922652	12	2.1	12	100	0	50	0	28	0	72	0.86
1922827--1922873	24	2.0	24	87	8	69	38	21	14	25	1.92
1923547--1923915	20	18.5	20	86	4	458	20	18	26	34	1.96
1925668--1925736	28	2.5	27	76	4	75	50	7	14	27	1.69
1926069--1926107	17	2.4	17	95	4	71	43	0	5	51	1.24
1927565--1927606	10	4.0	10	87	6	57	54	11	11	21	1.68
1927698--1927725	6	4.7	6	100	0	56	35	17	0	46	1.49
1928605--1928651	23	2.1	21	85	14	60	38	14	10	36	1.81
1931529--1931568	20	2.0	21	85	14	57	42	5	7	45	1.54
1932349--1932392	21	2.1	21	86	0	61	43	13	36	6	1.71
1937825--1937864	21	1.9	21	85	10	55	35	10	2	52	1.48
1938778--1938817	20	2.0	21	85	14	57	42	5	7	45	1.54
1938994--1939032	12	3.6	12	74	25	50	25	25	17	30	1.97
1938985--1939036	20	2.6	20	96	0	95	25	26	21	26	1.99
1939046--1939206	65	2.5	64	83	5	191	30	26	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1941943--1942059	29	3.8	29	75	17	103	47	0	0	52	1.00
1941953--1942053	41	2.4	39	81	14	112	46	0	0	53	1.00
1941942--1942054	32	3.3	33	80	19	151	46	0	0	53	1.00
1942462--1942516	23	2.3	24	79	17	62	41	1	1	54	1.21
1951430--1951463	12	2.8	12	90	0	50	32	2	0	64	1.08
1951578--1951800	123	1.8	122	89	2	349	34	8	9	47	1.67
1956462--1956567	54	2.0	54	90	3	169	35	17	21	24	1.95
1956471--1956615	54	2.7	54	82	4	148	40	15	20	24	1.90
1956992--1957090	22	4.5	22	85	0	126	33	13	12	41	1.81
1956992--1957097	44	2.4	44	87	0	149	33	13	12	41	1.81
1957743--1957869	45	2.8	45	92	0	209	24	22	20	33	1.97
1957892--1958173	45	6.3	45	96	0	510	22	23	18	35	1.96
1958300--1958330	3	10.0	3	93	6	53	35	0	0	64	0.94
1959545--1959611	31	2.3	30	80	10	75	34	7	1	56	1.36
1959744--1959973	123	1.9	120	82	10	290	37	7	7	46	1.61
1960801--1960835	15	2.2	16	95	5	63	2	17	0	80	0.84
1964336--1964388	23	2.3	23	96	0	97	32	20	15	32	1.93
1967026--1967066	21	2.0	21	95	0	73	26	24	24	24	2.00
1969921--1970038	60	2.0	60	83	3	148	25	22	23	28	1.99
1970180--1970287	3	36.0	3	80	14	116	33	2	0	63	1.08
1970179--1970281	17	6.0	17	77	10	102	32	2	0	65	1.08
1970180--1970287	20	5.4	20	78	16	109	33	2	0	63	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1971641--1971674	12	2.9	12	91	4	52	32	0	5	61	1.20
1977186--1977230	19	2.3	19	81	11	56	77	2	15	4	1.02
1981773--1981826	22	2.5	22	85	11	76	37	11	12	38	1.79
1982472--1982581	36	3.0	37	67	2	96	34	17	10	38	1.83
1982472--1982623	73	2.1	73	88	0	223	34	17	11	36	1.86
1982503--1982619	36	3.2	35	70	7	99	35	19	12	31	1.90
1982644--1983092	123	3.7	123	90	2	672	40	14	19	26	1.90
1982644--1983092	245	1.8	245	89	0	711	40	14	19	26	1.90
1983423--1983450	4	7.0	4	100	0	56	25	0	0	75	0.81
1983445--1983523	3	26.3	3	78	14	83	34	1	0	64	1.02
1983445--1983516	14	5.3	14	85	6	85	33	1	0	65	1.02
1984998--1985066	2	36.0	2	72	13	56	47	1	0	50	1.09
1986584--1986620	19	2.0	20	89	10	60	64	5	0	29	1.15
1987160--1987225	3	23.0	3	78	6	57	34	1	0	63	1.04
1988575--1988614	20	2.0	20	85	9	55	22	0	5	72	1.04
1989526--1989567	2	21.5	2	86	13	61	45	2	0	52	1.13
1994426--1994487	32	1.9	32	93	0	106	45	19	16	19	1.86
1998165--1998221	22	2.6	22	85	0	78	33	12	15	38	1.85
1999074--1999200	36	3.5	36	70	2	110	30	19	10	39	1.85
1999074--1999217	73	2.0	73	84	2	191	32	20	9	37	1.85
1999502--1999555	20	2.7	21	85	5	76	40	9	25	24	1.85
2000038--2000084	3	16.0	3	86	4	60	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2001346--2001393	16	3.0	17	85	8	57	29	6	4	60	1.40
2001409--2001463	22	2.6	21	82	5	65	29	0	1	69	0.99
2003597--2003645	25	2.0	25	91	0	80	34	8	18	38	1.80
2003603--2003657	25	2.2	24	84	9	74	38	7	16	38	1.76
2010669--2010744	22	3.8	21	68	22	65	27	27	18	26	1.98
2010701--2010747	22	2.1	22	92	0	76	23	29	21	25	1.99
2016592--2016679	34	2.6	34	81	0	104	19	1	14	64	1.35
2020024--2020069	21	2.1	22	96	4	85	45	13	4	36	1.63
2020569--2020602	17	2.0	17	94	0	59	11	38	29	20	1.88
2027290--2027336	24	1.9	25	91	4	78	36	44	0	19	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   27   28   29   30