genome.fa.s7884.2.7.7.80.10.50.1000.10.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: VEPZ01007884.1 Hibiscus syriacus cultivar Beakdansim tig00110264_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2814991

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

This is table  10  of  13  ( 1544 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)
1853703--1853825	39	3.1	37	76	20	117	52	4	2	41	1.34
1853726--1853823	41	2.5	40	85	6	137	47	5	2	44	1.36
1853726--1853835	41	2.8	40	81	12	136	48	5	1	44	1.36
1853785--1853875	30	2.9	31	90	8	141	49	5	3	41	1.42
1853880--1854038	38	4.2	38	84	6	196	45	7	5	42	1.54
1853882--1854024	75	1.9	75	85	5	200	45	6	4	43	1.50
1861158--1861219	30	2.1	28	85	8	88	54	14	9	20	1.68
1861159--1861220	29	2.1	30	90	3	99	56	14	8	20	1.64
1863453--1863485	2	17.0	2	93	6	59	51	0	0	48	1.00
1871359--1871390	3	10.3	3	93	6	55	34	0	3	62	1.11
1872774--1872858	42	2.0	42	86	0	116	48	3	2	45	1.32
1872841--1872888	15	3.0	16	75	9	53	60	2	2	35	1.20
1872841--1872888	8	6.0	8	76	9	53	60	2	2	35	1.20
1872989--1873021	17	1.9	17	93	0	57	45	0	3	51	1.16
1873869--1873932	32	2.0	32	87	3	94	32	28	7	31	1.85
1874996--1875076	40	2.0	40	100	0	162	45	17	9	27	1.79
1881147--1881653	202	2.5	200	77	7	526	35	19	9	35	1.85
1882388--1882451	23	2.9	22	72	21	53	59	0	3	37	1.13
1899439--1899529	45	2.0	46	87	6	132	27	23	20	28	1.99
1902791--1902848	20	2.6	22	86	10	75	29	22	22	25	1.99
1906151--1906209	31	1.9	31	89	0	91	44	5	6	44	1.52
1907530--1907697	30	5.8	29	77	13	177	45	19	4	30	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1907528--1907685	57	2.8	57	92	0	271	46	19	4	29	1.69
1908763--1908844	22	3.8	22	91	1	130	57	21	1	19	1.48
1908818--1908884	32	2.1	32	86	5	91	58	17	0	23	1.39
1908868--1908908	20	2.2	19	86	8	57	53	9	0	36	1.34
1915569--1915623	4	13.8	4	88	0	74	29	1	23	45	1.63
1915566--1915624	20	2.9	21	87	5	86	30	1	23	44	1.64
1915622--1915647	4	6.5	4	100	0	52	23	0	50	26	1.50
1915645--1915796	2	76.5	2	96	1	279	0	0	49	50	1.00
1915800--1915824	12	2.1	12	100	0	50	48	16	28	8	1.74
1916542--1916733	60	3.2	59	77	4	188	42	5	16	35	1.70
1926651--1926830	64	2.8	66	74	13	160	30	23	17	28	1.97
1927051--1927086	11	3.4	11	96	3	65	58	8	25	8	1.55
1928164--1928211	19	2.5	20	82	3	62	52	6	12	29	1.63
1940711--1940861	75	2.0	75	92	0	248	25	31	21	22	1.98
1946031--1946168	6	22.5	6	78	7	125	0	42	2	54	1.17
1946224--1946435	75	2.9	75	89	1	311	12	37	12	37	1.81
1949318--1949486	84	2.0	84	98	0	329	47	10	12	28	1.74
1952867--1952930	3	22.3	3	75	15	55	37	0	0	62	0.95
1952867--1952930	26	2.5	25	77	7	65	37	0	0	62	0.95
1953648--1953672	13	1.9	13	100	0	50	0	16	60	24	1.36
1958527--1958558	15	2.1	15	94	0	55	25	18	9	46	1.79
1965826--1965870	18	2.6	18	89	3	65	82	0	11	6	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1967431--1968354	123	7.9	112	84	6	807	38	14	19	28	1.90
1967431--1967990	222	2.5	222	84	5	696	37	13	19	29	1.90
1968687--1968768	3	28.3	3	84	11	109	36	0	0	63	0.95
1969503--1969527	13	1.9	13	100	0	50	4	16	56	24	1.57
1970315--1970575	145	1.8	141	83	8	348	38	6	5	49	1.54
1974257--1974289	17	1.9	17	93	0	57	6	12	9	72	1.26
1974899--1974944	19	2.5	19	89	3	67	10	10	8	69	1.37
1978342--1978908	164	3.5	164	92	1	929	29	25	19	24	1.98
1978903--1980142	106	12.0	106	90	3	1762	33	25	18	22	1.96
1979412--1979751	43	7.3	43	64	18	137	34	25	18	21	1.96
1979403--1980098	94	7.0	95	86	9	921	33	24	18	23	1.97
1978903--1980096	600	1.9	607	89	4	1839	34	25	17	22	1.96
1982015--1982082	29	2.3	29	100	0	136	22	20	33	23	1.97
1986741--1986782	16	2.4	17	80	15	50	50	4	2	42	1.36
1987706--1987736	2	15.5	2	100	0	62	51	0	0	48	1.00
1993787--1993843	2	28.5	2	100	0	114	49	0	0	50	1.00
1994350--1994399	25	2.0	25	96	0	91	30	16	26	28	1.96
2000744--2000786	21	2.0	21	95	0	77	32	16	9	41	1.80
2021177--2021227	20	2.5	20	90	0	75	15	15	33	35	1.90
2022459--2022520	23	2.6	24	77	12	65	32	17	6	43	1.75
2025156--2025187	16	1.9	17	93	6	57	62	12	12	12	1.55
2027226--2027286	7	8.0	8	80	14	51	77	4	0	18	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2027215--2027274	21	2.8	21	85	7	68	73	5	0	21	1.02
2027239--2027297	7	8.0	7	84	7	64	79	5	1	13	0.97
2027241--2027281	21	2.0	21	95	0	73	82	4	0	12	0.81
2030687--2030715	7	4.1	7	100	0	58	86	0	13	0	0.58
2031589--2031636	20	2.5	19	83	6	60	25	6	14	54	1.63
2041208--2041585	194	1.9	194	89	1	587	19	19	17	43	1.89
2049363--2049404	15	2.7	16	82	10	52	57	7	7	28	1.52
2050618--2050681	3	21.0	3	81	9	76	59	0	1	39	1.07
2050875--2051559	45	15.2	45	95	0	1237	33	19	23	22	1.97
2052214--2052298	22	3.9	22	87	6	118	37	11	15	35	1.84
2059037--2059099	27	2.4	26	82	12	83	60	11	9	19	1.57
2059159--2059199	6	6.0	7	78	16	50	58	12	14	14	1.63
2059274--2059360	43	2.0	44	93	2	149	35	22	10	31	1.88
2059746--2059817	36	2.0	36	88	0	108	27	11	19	41	1.85
2061688--2061754	15	4.5	16	72	18	56	56	4	7	31	1.47
2064263--2064361	33	3.0	33	94	1	164	45	15	7	32	1.73
2064356--2064397	21	2.0	21	95	0	75	47	7	14	30	1.71
2066959--2067026	3	22.0	3	85	8	84	60	0	0	39	0.97
2068015--2068079	21	3.0	21	70	16	53	49	3	0	47	1.17
2068405--2068440	16	2.2	16	100	0	72	30	38	13	16	1.88
2077364--2077606	4	58.8	4	67	20	76	71	2	6	19	1.19
2077364--2077609	9	26.6	9	70	19	100	71	2	6	19	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2077364--2077522	35	4.3	33	72	22	104	72	3	5	19	1.17
2077651--2077727	21	3.6	21	72	13	50	70	3	3	22	1.20
2077661--2077719	29	2.0	29	80	6	66	69	3	3	23	1.19
2079653--2081120	84	17.5	84	85	2	1795	24	19	24	31	1.98
2082255--2082517	95	2.7	95	88	4	368	32	18	17	31	1.94
2086392--2086549	4	36.8	4	67	22	56	72	2	5	19	1.15
2086400--2086475	28	2.8	26	80	15	82	77	1	5	15	1.01
2086592--2086636	19	2.4	18	85	7	54	77	0	4	17	0.92
2086721--2086812	35	2.7	33	80	11	89	71	1	5	21	1.12
2086751--2086776	12	2.2	12	100	0	52	65	0	7	26	1.20
2086756--2086798	23	1.9	22	85	4	59	69	0	2	27	1.00
2086392--2086633	9	26.6	9	69	20	112	71	2	7	19	1.18
2111591--2111632	18	2.3	18	87	0	57	66	2	7	23	1.28
2112893--2112953	25	2.3	27	81	15	67	49	21	14	14	1.79
2119668--2119698	3	10.3	3	100	0	62	67	0	32	0	0.91
2120712--2120746	13	2.7	13	95	0	61	37	22	25	14	1.92
2134928--2135237	37	8.4	36	81	12	310	45	3	4	46	1.41
2134928--2135237	39	8.4	34	78	13	269	45	3	4	46	1.41
2134937--2135211	36	7.5	35	80	12	241	46	3	5	44	1.44
2135254--2135338	13	6.6	13	70	15	52	22	4	1	71	1.11
2137627--2137719	20	4.6	20	78	7	89	48	1	2	48	1.20
2137630--2137713	21	4.1	21	80	11	77	51	1	1	46	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2138323--2138556	82	2.9	80	82	8	289	41	4	10	43	1.60
2144290--2144551	123	2.2	120	79	6	260	32	17	16	32	1.93
2148453--2148503	4	12.8	4	87	0	66	27	5	21	45	1.75
2150766--2150805	20	2.0	20	90	0	62	55	10	10	25	1.64
2154092--2154121	12	2.5	12	100	0	60	66	0	0	33	0.92
2154136--2154183	20	2.3	20	80	13	53	70	2	4	22	1.15
2154124--2154187	21	3.1	20	77	6	56	73	3	3	20	1.11
2155459--2155515	16	3.7	14	80	15	60	71	1	3	22	1.10
2155479--2155521	22	2.0	22	90	0	68	67	2	2	27	1.15
2155639--2155832	39	5.1	38	80	7	198	44	5	3	46	1.44

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