genome.fa.s9460.2.7.7.80.10.50.1000.10.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: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2853300

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

This is table  10  of  14  ( 1601 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)
1830495--1830566	3	25.7	3	74	25	61	68	0	1	30	0.99
1830490--1830566	14	5.4	14	78	18	72	68	0	2	28	1.02
1830495--1830567	15	4.7	15	75	16	69	67	0	1	31	1.00
1832841--1832886	3	14.3	3	91	8	65	0	32	0	67	0.91
1833793--1833823	4	7.8	4	92	0	53	74	0	25	0	0.82
1837185--1837221	19	1.9	19	100	0	74	27	43	13	16	1.85
1838651--1838678	3	9.3	3	100	0	56	67	0	0	32	0.91
1841054--1841091	19	2.0	19	85	10	51	63	0	13	23	1.30
1843797--1843873	6	12.2	6	85	9	100	79	2	0	18	0.85
1849890--1849930	21	2.0	21	100	0	82	43	12	19	24	1.85
1852595--1852641	23	2.0	23	84	8	60	38	0	2	59	1.09
1854608--1854643	17	2.0	19	89	10	58	38	11	5	44	1.63
1855127--1855275	64	2.3	65	85	6	196	28	16	20	33	1.95
1859307--1859455	64	2.3	65	85	6	196	28	17	20	33	1.95
1862037--1862069	2	16.5	2	100	0	66	51	0	0	48	1.00
1864742--1864815	37	2.0	37	89	0	112	36	5	12	45	1.64
1870061--1870099	13	2.9	13	80	3	51	51	12	0	35	1.40
1870602--1870640	19	2.1	19	90	0	60	23	38	12	25	1.90
1870588--1870748	65	2.5	65	85	1	207	31	26	15	27	1.96
1877776--1877814	19	2.1	19	95	0	69	20	38	15	25	1.92
1877713--1877921	65	3.2	64	83	8	212	29	25	17	27	1.97
1877762--1877924	65	2.5	65	85	3	222	30	26	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1885587--1885620	17	2.1	15	89	10	50	29	5	17	47	1.71
1885776--1885812	15	2.6	14	87	8	56	81	2	5	10	0.96
1885771--1885809	14	2.6	15	84	12	53	79	2	7	10	1.02
1887378--1887419	22	1.9	22	85	9	59	26	9	7	57	1.56
1887702--1887749	24	2.0	24	91	0	78	18	10	0	70	1.15
1887719--1887790	33	2.2	32	79	15	78	20	9	1	68	1.26
1892036--1892105	32	2.2	32	86	0	95	30	14	24	31	1.94
1892048--1892123	32	2.4	32	86	4	100	30	14	22	32	1.94
1892702--1892984	120	2.3	124	88	2	403	32	24	16	25	1.96
1893207--1893732	84	6.4	84	85	4	660	35	22	18	22	1.96
1893948--1894235	132	2.2	132	83	2	355	32	19	18	29	1.96
1896474--1896513	20	2.0	20	95	4	73	65	7	7	20	1.43
1896531--1896581	23	2.2	23	82	6	68	41	19	5	33	1.76
1908740--1908772	6	5.7	6	96	3	59	30	0	15	54	1.41
1908826--1908879	16	3.4	16	78	16	51	51	3	0	44	1.19
1912365--1912425	21	2.9	21	75	0	68	29	16	22	31	1.96
1918008--1918183	56	3.1	56	92	0	289	39	17	15	27	1.90
1918008--1918207	56	3.6	56	86	2	267	40	17	14	28	1.89
1921117--1921145	2	14.5	2	100	0	58	51	0	0	48	1.00
1921711--1921986	53	5.1	53	88	2	390	26	28	14	30	1.95
1921703--1921986	108	2.6	108	88	2	421	27	28	14	30	1.95
1922917--1922971	8	7.5	8	80	17	50	10	7	0	81	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1922925--1922971	7	6.7	7	85	9	53	12	4	0	82	0.80
1922934--1922958	11	2.3	11	100	0	50	8	0	0	92	0.40
1922916--1922971	26	2.1	27	86	3	78	10	7	0	82	0.85
1936245--1936286	2	21.0	2	100	0	84	50	0	0	50	1.00
1940539--1940586	20	2.5	19	74	16	53	31	2	0	66	1.03
1955585--1955615	2	15.5	2	100	0	62	51	0	0	48	1.00
1957435--1958006	23	27.3	19	78	12	361	21	19	23	35	1.96
1957404--1958006	42	14.3	42	80	9	560	21	19	23	35	1.95
1957536--1958006	65	7.4	63	88	5	368	20	19	23	35	1.95
1957443--1957999	107	5.3	105	86	6	684	20	19	24	35	1.95
1958832--1959003	21	8.7	19	71	17	113	33	24	20	20	1.97
1958851--1958960	55	2.0	55	89	0	166	34	22	20	21	1.97
1959024--1959070	21	2.2	21	100	0	94	19	19	34	27	1.96
1959207--1959247	21	2.0	21	90	0	64	19	19	26	34	1.96
1959024--1959373	181	1.9	181	97	0	664	30	15	21	32	1.94
1961772--1962119	171	2.0	171	92	1	581	26	17	15	40	1.89
1963946--1963998	16	3.2	16	78	5	61	43	26	0	30	1.55
1963946--1963992	12	4.2	12	76	17	57	42	27	0	29	1.56
1964328--1964396	23	3.0	23	85	4	95	27	24	26	21	1.99
1964412--1964732	103	3.1	103	95	0	570	36	24	12	26	1.91
1965842--1965887	21	2.2	21	84	0	56	13	26	30	30	1.93
1968375--1968427	16	3.2	16	78	5	61	43	26	0	30	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1968375--1968421	12	4.2	12	76	17	57	42	27	0	29	1.56
1968756--1968824	23	3.0	23	83	8	95	27	26	26	20	1.99
1968840--1969160	103	3.1	103	97	0	588	36	23	13	26	1.91
1973113--1973176	23	2.8	23	83	9	94	15	25	26	32	1.95
1977609--1977669	23	2.6	24	79	5	81	18	22	29	29	1.97
1979683--1979748	26	2.5	27	76	11	66	7	16	10	65	1.46
1984133--1984170	20	1.9	20	88	0	58	28	13	15	42	1.85
1984489--1984543	3	18.3	3	92	7	94	67	0	0	32	0.91
1985117--1985164	21	2.3	22	79	17	57	33	2	4	60	1.27
1985993--1986035	22	2.0	21	86	4	59	25	39	16	18	1.91
1986423--1986469	20	2.3	20	88	0	67	19	17	25	38	1.92
1986437--1986491	20	2.8	20	91	0	83	10	16	23	49	1.77
1986456--1986499	20	2.2	20	87	0	61	13	13	20	52	1.74
1986786--1986862	35	2.2	35	83	0	91	40	1	20	37	1.61
1986993--1987054	29	2.1	29	88	5	90	33	8	24	33	1.85
1987916--1987981	22	3.0	22	81	0	78	25	37	15	21	1.92
1988349--1988398	20	2.5	20	90	0	73	18	18	28	36	1.94
1988366--1988420	20	2.8	20	91	0	83	10	16	23	49	1.77
1988385--1988428	20	2.2	20	87	0	61	13	13	20	52	1.74
1990293--1990431	20	7.6	20	72	21	108	43	21	17	17	1.87
1990450--1990497	20	2.4	20	85	0	60	25	18	20	35	1.95
1990482--1990515	14	2.4	14	90	0	50	8	17	20	52	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1990471--1990564	33	2.8	34	83	3	136	12	20	22	44	1.85
1990536--1990584	20	2.5	20	100	0	98	14	20	26	38	1.91
1990536--1990594	20	3.0	20	89	0	64	15	18	23	42	1.88
1991065--1991175	42	2.6	42	77	5	109	20	36	18	24	1.94
1992615--1992701	33	2.6	34	87	3	122	16	22	17	43	1.87
1992676--1992764	20	4.4	20	88	2	135	17	22	24	34	1.96
1995206--1995252	24	2.0	24	95	0	85	34	17	21	27	1.95
1995210--1995261	24	2.2	24	85	0	68	36	19	19	25	1.95
1996099--1996152	20	2.7	20	79	2	54	22	22	20	35	1.96
1996148--1996194	21	2.2	21	84	0	67	38	14	25	21	1.92
2000966--2001037	20	3.6	20	94	0	126	40	15	19	25	1.90
2001026--2001113	20	4.4	20	94	0	140	27	27	20	25	1.99
2000904--2001052	40	3.7	40	74	11	140	31	20	18	30	1.96
2001934--2001987	24	2.2	24	93	0	90	20	18	20	40	1.91
2004232--2004266	18	1.9	18	94	0	61	54	25	2	17	1.57
2004426--2004753	20	17.6	20	73	15	276	34	22	19	23	1.96
2004426--2004570	54	2.7	54	92	0	245	36	24	17	22	1.94
2004434--2004753	94	3.5	93	89	3	443	34	23	19	23	1.97
2004426--2004684	74	3.5	74	75	6	265	35	22	18	23	1.96
2004743--2004800	20	2.9	20	84	0	80	12	17	25	44	1.83
2004899--2004960	14	4.3	14	77	6	61	46	14	0	38	1.45
2008009--2008055	20	2.5	18	89	6	67	34	27	19	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2008315--2008401	20	4.3	20	88	5	113	34	26	18	20	1.96
2008445--2008492	20	2.4	20	92	0	78	18	20	27	33	1.96
2008640--2008689	18	2.8	18	93	0	91	42	4	20	34	1.70
2010420--2010526	20	5.4	20	82	3	101	46	21	16	14	1.83
2010908--2010964	22	2.6	22	85	0	87	17	19	42	21	1.90
2011136--2011222	20	4.3	20	94	0	138	21	21	26	29	1.99
2011216--2011262	20	2.3	20	100	0	94	23	19	17	40	1.91
2011258--2011310	21	2.5	22	71	6	54	39	18	22	18	1.92
2011889--2011951	20	3.2	20	70	29	55	50	1	0	47	1.10
2012549--2012666	62	1.9	62	84	3	157	31	16	14	37	1.89

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