genome.fa.s572.2.7.7.80.10.50.1000.8.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: VEPZ01000572.1 Hibiscus syriacus cultivar Beakdansim tig00001120_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2399138

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1076 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)
1828847--1828873	2	13.5	2	100	0	54	51	0	0	48	1.00
1829319--1829377	30	2.0	30	93	6	102	35	3	16	44	1.65
1829467--1829545	20	4.1	20	75	21	87	22	36	27	12	1.91
1829493--1829522	15	2.0	15	100	0	60	26	33	26	13	1.93
1829637--1829679	21	2.0	21	95	0	77	23	20	27	27	1.99
1829707--1829746	20	1.9	22	90	10	66	37	40	10	12	1.77
1829962--1830031	34	2.1	32	86	5	95	31	15	30	22	1.95
1831021--1831064	3	15.0	3	88	4	63	68	2	29	0	1.02
1832648--1832706	30	2.0	30	93	6	102	35	3	16	44	1.65
1832796--1832874	21	4.0	21	76	18	89	22	35	27	13	1.93
1832802--1832873	36	2.0	36	91	0	117	23	33	27	15	1.95
1832823--1832852	15	2.0	15	100	0	60	26	33	26	13	1.93
1832966--1833008	21	2.0	21	95	0	77	23	20	27	27	1.99
1833036--1833075	20	1.9	22	90	10	66	37	40	10	12	1.77
1833290--1833359	34	2.1	32	84	5	86	32	14	30	22	1.94
1841400--1841627	83	2.8	82	79	9	198	34	16	14	33	1.90
1841443--1841703	83	3.1	83	82	4	287	34	16	16	32	1.91
1841514--1841645	42	3.1	42	72	15	119	37	16	15	29	1.90
1842418--1842494	31	2.5	31	82	2	91	28	25	27	18	1.98
1849867--1849919	18	2.9	17	78	13	52	28	0	7	64	1.21
1850418--1850449	14	2.3	14	94	0	55	56	0	9	34	1.32
1852980--1853067	27	3.2	27	68	6	86	38	6	6	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852955--1853067	56	2.0	56	100	0	226	37	7	7	48	1.58
1855116--1855140	4	6.2	4	100	0	50	24	0	0	76	0.80
1856829--1856871	2	21.5	2	100	0	86	48	0	0	51	1.00
1856853--1857442	301	2.0	302	93	1	1013	33	12	7	47	1.69
1858350--1858383	2	17.0	2	100	0	68	50	0	0	50	1.00
1858674--1859026	174	2.0	171	96	3	607	43	9	19	28	1.81
1859116--1859175	21	2.9	21	87	0	84	28	20	26	25	1.99
1859980--1860029	19	2.6	19	100	0	100	24	12	14	50	1.76
1870227--1870274	24	2.0	25	83	4	62	70	8	16	4	1.27
1870902--1870955	22	2.5	22	90	0	90	35	27	11	25	1.90
1871575--1871620	20	2.3	20	92	0	74	43	13	13	30	1.81
1871931--1872146	105	2.0	106	90	0	344	33	24	19	22	1.97
1873188--1873221	2	18.0	2	88	11	54	50	0	0	50	1.00
1873170--1873221	19	2.8	19	80	16	56	51	0	0	48	1.00
1873188--1873234	17	2.9	16	84	12	60	46	0	2	51	1.13
1876992--1877050	24	2.5	24	94	0	100	18	27	38	15	1.91
1876999--1877075	17	4.3	17	68	25	52	15	24	44	15	1.85
1877050--1877083	14	2.4	14	95	0	59	11	26	47	14	1.79
1877071--1877120	9	5.3	9	79	9	55	30	28	24	18	1.97
1883941--1883985	7	6.4	7	89	0	72	31	28	24	15	1.96
1883978--1884010	17	1.9	17	100	0	66	12	27	48	12	1.76
1883982--1884034	22	2.4	22	93	0	88	9	24	49	16	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1884024--1884057	14	2.4	14	95	0	59	11	26	47	14	1.79
1884045--1884104	9	6.3	9	79	11	66	28	30	26	15	1.96
1884048--1884104	19	2.9	19	87	5	78	29	31	24	14	1.94
1884051--1884105	20	2.8	20	88	2	76	29	30	23	16	1.96
1888610--1890385	590	3.0	591	98	0	3473	25	19	22	32	1.97
1898873--1898974	34	3.0	34	81	8	127	40	26	12	20	1.88
1904660--1904698	2	19.5	2	100	0	78	51	0	0	48	1.00
1910138--1910179	15	2.7	16	82	13	52	57	0	2	40	1.12
1919376--1919450	30	2.5	30	100	0	150	25	32	8	34	1.85
1921460--1921753	147	2.0	147	87	0	417	44	20	12	22	1.84
1926167--1926243	31	2.5	31	77	10	77	44	5	9	41	1.58
1947936--1947974	19	2.0	21	90	10	64	15	20	0	64	1.30
1949578--1949681	37	2.8	37	86	0	136	42	13	13	30	1.83
1950101--1950142	22	1.9	22	85	9	59	26	2	0	71	0.98
1950177--1950203	2	13.5	2	100	0	54	48	0	0	51	1.00
1950203--1950247	17	2.9	16	76	23	51	20	6	4	68	1.29
1950261--1950293	2	16.5	2	100	0	66	48	0	0	51	1.00
1950398--1950451	21	2.5	21	80	14	65	31	3	0	64	1.11
1950438--1950487	11	4.8	10	77	22	50	26	2	0	72	0.96
1950421--1950487	14	4.8	14	75	12	66	28	1	0	70	0.96
1950398--1950487	43	2.1	42	82	10	103	30	3	0	66	1.07
1950575--1950630	19	2.9	19	75	19	62	23	8	1	66	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1954918--1954973	23	2.4	23	81	3	67	76	7	14	1	1.07
1957033--1958202	106	11.0	106	92	0	1815	34	25	17	22	1.96
1958952--1959048	37	2.6	37	85	0	131	41	16	11	30	1.84
1959475--1959521	15	3.4	14	77	19	53	27	0	0	72	0.85
1959475--1959521	23	2.0	23	88	8	69	27	0	0	72	0.85
1959531--1959578	5	9.8	5	82	8	55	35	2	0	62	1.07
1959539--1959584	13	3.7	13	74	11	51	32	2	0	65	1.05
1959531--1959582	24	2.1	24	85	7	68	34	1	0	63	1.06
1959715--1959850	21	6.4	20	67	21	64	31	4	0	63	1.19
1959935--1959991	20	2.9	19	75	14	62	22	8	1	66	1.29
1960372--1960424	27	2.0	27	84	0	70	30	9	11	49	1.70
1960471--1960520	7	7.0	7	79	4	55	70	0	2	28	0.99
1960470--1960520	15	3.5	15	83	5	59	70	0	1	27	0.98
1960461--1960520	21	2.8	21	89	5	84	68	0	1	30	0.99
1971411--1971453	2	22.0	2	90	4	70	46	2	0	51	1.13
1972672--1972753	38	2.1	38	82	6	94	57	3	8	30	1.46
1984930--1985493	279	2.0	281	99	0	1114	22	18	27	31	1.97
1996832--1996892	17	3.3	18	79	11	61	50	1	1	45	1.21
1998003--1998037	12	2.9	12	91	0	52	0	5	5	88	0.63
1998889--1998916	13	2.2	13	100	0	56	25	0	0	75	0.81
2000195--2000228	14	2.5	14	90	4	52	73	0	20	5	1.04
2006952--2006981	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2021596--2021663	29	2.3	29	100	0	136	26	20	23	29	1.99
2021715--2021780	27	2.4	27	95	5	116	36	16	18	28	1.93
2021833--2021873	16	2.6	16	92	3	66	34	17	9	39	1.82
2026534--2026582	23	2.1	23	88	0	71	38	8	22	30	1.83
2026498--2026659	87	1.9	87	93	0	279	41	11	16	30	1.82
2026681--2027128	196	2.3	197	81	7	509	32	15	14	37	1.87
2027035--2027227	106	1.8	107	82	3	255	30	14	12	41	1.83
2028242--2028318	37	2.1	37	100	0	154	25	24	20	28	1.99
2030254--2030901	182	3.6	181	87	2	863	28	16	12	42	1.85
2035285--2035337	2	26.5	2	96	0	97	49	0	0	50	1.00
2036274--2036300	2	13.5	2	100	0	54	51	0	0	48	1.00
2040573--2040650	33	2.4	33	97	2	149	24	20	21	33	1.97
2052365--2052394	12	2.5	12	100	0	60	66	0	0	33	0.92
2052363--2052404	12	3.8	12	75	18	54	69	0	0	30	0.89
2053142--2053192	24	2.0	25	85	7	68	50	9	0	39	1.35
2069575--2069600	4	6.5	4	100	0	52	73	0	0	26	0.84
2073693--2074321	128	4.9	128	94	0	1134	23	24	19	31	1.98
2074723--2074821	33	2.9	34	81	3	128	40	3	4	52	1.36
2075341--2075434	21	4.5	21	92	5	129	20	26	35	18	1.95
2077215--2077289	34	2.3	32	81	9	89	60	1	1	37	1.14
2077245--2077322	35	2.2	34	80	10	86	65	5	0	29	1.14
2083466--2083529	29	2.2	29	91	2	101	56	4	7	31	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2083476--2083534	29	2.0	29	100	0	118	55	3	10	30	1.49
2088637--2088730	35	2.7	35	86	1	125	27	24	20	27	1.99
2088711--2088749	17	2.3	17	100	0	78	28	30	17	23	1.97
2092263--2092321	7	8.6	7	81	9	68	47	33	0	18	1.49
2092269--2092399	21	6.2	21	75	7	122	48	29	0	22	1.51
2092353--2092463	49	2.3	49	87	4	170	47	27	0	24	1.52
2092275--2092398	63	2.0	63	96	0	230	48	29	0	22	1.51
2092403--2092474	28	2.6	28	80	4	83	48	25	0	26	1.51
2092851--2092891	14	3.1	14	76	20	52	39	0	7	53	1.29
2092982--2093015	11	3.0	11	83	8	50	17	23	35	23	1.95

Tables:   1   2   3   4   5   6   7   8   9