genome.fa.s9605.2.7.7.80.10.50.1000.9.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   31   32   
          33   34   35   

This is table  9  of  35  ( 4090 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)
1865906--1867107	542	2.2	538	86	2	1675	27	22	16	32	1.96
1867147--1867264	42	2.8	41	92	3	191	33	21	21	23	1.97
1867199--1867263	20	3.2	20	67	16	60	32	21	20	26	1.97
1867170--1867236	22	3.1	21	67	16	57	34	20	20	23	1.97
1867182--1867244	22	3.0	22	68	13	60	33	25	17	23	1.96
1870127--1870181	7	7.9	7	88	9	69	1	12	0	85	0.68
1870127--1870178	15	3.5	15	85	12	72	1	13	0	84	0.70
1870127--1870181	22	2.6	22	85	5	78	1	12	0	85	0.68
1873529--1873570	1	42.0	1	85	0	57	0	7	0	92	0.37
1873517--1873572	7	7.7	7	79	15	51	0	12	0	87	0.54
1873517--1873565	23	2.1	23	84	0	62	0	12	0	87	0.54
1873519--1873567	25	2.0	25	87	0	71	0	12	0	87	0.54
1877296--1877520	63	3.6	62	79	5	240	43	16	17	23	1.87
1877296--1877520	123	1.8	123	83	0	297	43	16	17	23	1.87
1879552--1879613	2	31.0	2	100	0	124	50	0	0	50	1.00
1884693--1884735	18	2.4	18	80	0	50	76	0	16	6	0.99
1886071--1886340	117	2.3	117	80	5	287	31	17	19	31	1.94
1886356--1886702	132	2.7	130	77	7	342	33	20	15	31	1.93
1887119--1887159	22	2.0	20	85	9	55	48	0	4	46	1.23
1887207--1887240	17	2.1	17	88	5	52	41	2	11	44	1.56
1893965--1894271	153	2.0	150	92	1	515	30	18	26	25	1.98
1900652--1900697	22	2.1	22	87	0	65	39	2	8	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901428--1901463	16	2.3	15	90	4	54	47	0	2	50	1.15
1906848--1906883	18	2.0	18	100	0	72	44	11	5	38	1.63
1907268--1907313	22	2.1	22	91	0	74	36	2	10	50	1.50
1907463--1907508	22	2.1	22	91	0	74	36	2	10	50	1.50
1907672--1907719	20	2.4	20	85	0	60	37	14	33	14	1.87
1915006--1915056	21	2.4	21	90	0	84	39	33	11	15	1.84
1934501--1934533	12	2.8	12	90	0	57	54	9	9	27	1.62
1934752--1934819	27	2.6	27	90	2	102	29	14	19	36	1.91
1941479--1941544	26	2.5	26	100	0	132	28	22	24	24	1.99
1944320--1944375	22	2.7	20	77	22	62	26	17	25	30	1.97
1953085--1953128	18	2.4	18	96	0	79	36	25	11	27	1.90
1956491--1956533	21	2.1	20	95	4	77	37	25	6	30	1.82
1966485--1966738	133	1.9	133	85	4	350	31	20	17	30	1.95
1966485--1966760	134	2.1	134	84	4	351	32	19	18	29	1.95
1966695--1966798	42	2.5	42	90	1	156	33	19	20	26	1.96
1967047--1967100	3	18.0	3	100	0	108	33	0	0	66	0.92
1969902--1969967	29	2.3	29	81	5	71	24	22	15	37	1.92
1969924--1969980	29	2.0	29	82	0	69	24	26	15	33	1.95
1973072--1973098	14	1.9	14	100	0	54	59	0	3	37	1.15
1975627--1975699	35	2.0	37	94	5	132	23	17	21	36	1.94
1976281--1976675	191	2.1	191	87	0	558	34	17	14	33	1.90
1976454--1977443	233	4.2	234	79	5	903	35	15	16	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1982175--1982225	20	2.5	21	87	6	77	43	23	15	17	1.88
1986812--1986841	3	10.0	3	100	0	60	66	0	0	33	0.92
2000868--2000983	38	3.1	38	96	2	207	27	26	23	22	1.99
2002076--2002472	197	2.0	198	96	2	728	39	21	8	31	1.82
2003953--2004013	27	2.3	27	100	0	122	60	3	11	24	1.46
2006655--2006700	21	2.2	21	100	0	92	15	30	32	21	1.94
2014040--2014165	36	3.5	36	89	4	173	34	25	19	20	1.96
2014040--2014180	36	3.9	36	87	6	171	36	23	19	19	1.95
2014389--2015642	54	23.7	54	80	8	1115	32	18	25	24	1.97
2014571--2014739	55	3.1	55	85	6	236	30	15	25	27	1.96
2014389--2015661	104	12.0	104	79	8	1153	32	17	25	24	1.97
2014409--2015687	210	6.0	208	78	10	1135	32	17	25	24	1.97
2015602--2016017	55	7.6	55	83	6	429	32	15	24	28	1.95
2015647--2016014	111	3.4	111	81	5	371	32	14	23	29	1.94
2015702--2016045	163	2.1	166	80	6	389	32	15	24	27	1.95
2017288--2017333	21	2.2	21	100	0	92	15	30	32	21	1.94
2021225--2021267	22	2.0	21	90	4	68	23	9	13	53	1.69
2025934--2025964	2	15.5	2	100	0	62	48	0	0	51	1.00
2029130--2029566	45	10.0	44	72	9	214	34	23	18	23	1.96
2029130--2029314	85	2.1	88	81	10	220	33	23	17	25	1.96
2029164--2029546	45	8.7	45	74	10	229	35	23	17	23	1.95
2029164--2029546	88	4.4	89	76	10	249	35	23	17	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2029164--2029514	131	2.7	130	77	9	358	35	23	17	23	1.95
2029350--2029567	89	2.5	87	84	5	276	34	23	19	22	1.96
2030407--2030483	38	2.0	38	100	0	154	31	5	10	53	1.57
2030407--2030469	22	3.1	22	63	32	59	31	6	9	52	1.59
2034342--2034423	36	2.3	37	81	10	98	39	6	13	41	1.69
2034484--2034659	73	2.4	73	89	5	257	46	2	6	44	1.41
2034484--2034659	36	4.8	36	87	9	248	46	2	6	44	1.41
2034584--2034689	48	2.2	49	81	6	117	42	4	9	43	1.58
2036035--2036092	10	5.7	10	77	8	55	31	3	3	62	1.29
2036035--2036102	15	4.5	15	78	9	68	29	2	2	64	1.22
2042925--2043293	38	9.8	37	78	12	369	44	3	7	43	1.51
2043324--2043362	12	3.0	13	85	7	53	28	0	2	69	1.02
2044675--2044708	5	6.6	5	93	6	59	35	2	0	61	1.11
2044675--2044708	16	2.2	15	94	5	59	35	2	0	61	1.11
2044654--2044714	11	5.8	11	75	16	58	29	1	3	65	1.18
2051175--2051207	14	2.4	14	100	0	66	48	9	21	21	1.77
2054803--2054844	22	1.9	22	90	0	66	35	16	30	16	1.92
2055541--2055600	18	3.1	19	69	21	61	51	1	3	43	1.28
2055534--2055600	21	3.4	20	72	17	68	53	1	2	41	1.25
2055621--2055750	8	16.5	8	68	19	51	37	6	2	53	1.38
2055570--2055677	56	1.9	58	83	11	143	40	6	0	51	1.34
2055608--2055674	21	3.2	21	91	8	102	40	4	0	55	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2055693--2055750	2	28.0	2	76	13	55	41	3	1	53	1.28
2056728--2056966	129	1.8	130	81	9	301	30	20	16	32	1.95
2064083--2064420	13	24.8	13	66	23	78	50	2	6	39	1.43
2064060--2064176	49	2.2	52	75	20	118	52	4	6	36	1.48
2064114--2064168	23	2.5	22	82	5	74	49	3	7	40	1.48
2064147--2064204	7	8.3	7	78	14	50	53	3	8	34	1.49
2064060--2064204	53	2.8	51	77	17	149	52	4	7	35	1.49
2064080--2064239	30	5.1	31	75	17	125	50	3	7	39	1.47
2064090--2064481	142	2.9	134	70	16	313	50	3	6	39	1.47
2064264--2064339	40	1.9	40	86	5	109	47	2	5	44	1.39
2064305--2064472	34	5.1	31	73	16	90	54	3	7	35	1.45
2064313--2064431	17	7.1	17	68	27	62	55	0	7	36	1.34
2064313--2064410	22	4.3	23	81	8	87	56	0	7	36	1.27
2064382--2064445	17	3.6	17	79	14	58	53	3	7	35	1.46
2064403--2064489	34	2.5	35	84	3	113	51	5	9	33	1.57
2065598--2065645	24	2.0	24	100	0	96	33	29	12	25	1.92
2065968--2066069	39	2.6	39	81	3	125	12	29	24	33	1.92
2066616--2066667	21	2.5	21	81	9	61	55	0	5	38	1.24
2066658--2066705	22	2.2	22	85	7	62	54	2	8	35	1.42
2066700--2067207	2	257.5	2	70	20	261	50	1	5	42	1.36
2066635--2067154	20	26.0	20	71	20	208	51	1	6	40	1.35
2067101--2067317	22	10.2	20	73	18	122	39	5	1	53	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2067216--2067310	27	3.4	27	68	23	72	33	7	2	56	1.39
2067185--2067331	22	7.0	22	82	11	152	34	8	2	54	1.44
2067264--2067329	29	2.2	30	84	7	82	34	7	1	56	1.37
2067137--2067752	41	14.7	42	67	25	171	37	8	2	51	1.46
2067373--2067427	19	2.6	22	83	16	73	36	5	3	54	1.41
2067343--2067543	89	2.2	88	78	14	205	39	7	2	49	1.45
2067394--2067669	30	9.4	29	70	22	124	39	8	2	49	1.46
2067481--2067566	24	3.5	23	75	9	73	43	5	1	50	1.34
2067781--2067854	17	4.2	17	75	14	60	45	2	4	47	1.35
2067804--2067944	21	6.9	20	71	20	96	48	4	2	45	1.34

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   31   32   
          33   34   35