genome.fa.s8460.2.7.7.80.10.50.1000.11.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: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2854393

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  11  of  15  ( 1744 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)
1917286--1917343	14	3.9	14	79	16	71	48	25	17	8	1.75
1917270--1917348	32	2.4	33	93	2	133	48	24	17	10	1.78
1917355--1917459	19	5.8	19	78	12	105	13	21	20	43	1.86
1917355--1917436	18	4.7	18	78	15	91	12	20	21	45	1.84
1917360--1917459	51	1.9	53	87	4	150	13	21	21	45	1.85
1919323--1919358	14	2.6	14	90	0	54	30	0	22	47	1.52
1919475--1919542	19	3.8	19	79	14	83	45	17	22	14	1.85
1923185--1923313	19	7.7	19	66	24	85	42	19	22	15	1.88
1923185--1923309	33	3.8	33	85	6	184	42	19	22	16	1.89
1923337--1923382	18	2.5	19	82	7	58	13	17	21	47	1.81
1923489--1923525	14	2.6	14	91	0	65	45	24	0	29	1.53
1926943--1927119	20	9.8	18	72	17	102	45	20	22	11	1.83
1926967--1927064	32	3.0	33	87	4	144	39	23	25	11	1.88
1927036--1927124	19	4.7	19	87	4	126	49	20	19	11	1.78
1927120--1927165	20	2.4	19	82	7	65	6	15	23	54	1.64
1927125--1927162	20	1.9	20	94	0	67	2	15	23	57	1.51
1927410--1927434	12	2.1	12	100	0	50	88	12	0	0	0.53
1927715--1927828	20	5.7	20	83	2	111	25	18	24	31	1.97
1927715--1927831	61	1.9	61	85	0	162	24	17	23	33	1.97
1927715--1927849	61	2.2	61	81	5	157	23	19	23	33	1.97
1927899--1927939	21	2.0	21	85	0	55	34	31	17	17	1.93
1927959--1928009	19	2.7	19	96	0	93	23	21	29	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1929420--1929460	14	2.9	14	85	0	55	24	2	0	73	0.96
1929566--1929605	14	2.8	14	88	3	53	22	5	0	72	1.04
1929422--1929720	145	2.1	145	98	0	582	32	16	12	38	1.86
1937495--1937718	64	3.5	64	81	4	213	31	20	19	28	1.97
1937997--1938054	27	2.2	26	84	9	73	39	5	22	32	1.76
1938230--1938413	31	5.9	31	88	3	273	40	11	15	32	1.83
1938263--1938316	16	3.4	16	67	23	51	38	12	16	31	1.87
1938229--1938418	93	2.0	93	92	0	317	39	11	15	34	1.82
1938359--1938409	16	3.2	16	70	25	54	37	13	17	31	1.89
1939489--1939548	21	2.9	19	80	9	57	36	21	33	8	1.84
1939790--1939845	24	2.3	24	100	0	112	37	16	17	28	1.91
1942903--1942940	18	2.1	18	90	0	58	26	13	31	28	1.93
1944619--1944659	18	2.3	18	91	4	66	63	2	4	29	1.28
1948050--1948468	20	20.9	20	80	10	201	40	22	21	15	1.91
1948131--1948480	20	17.4	20	83	8	281	39	23	21	15	1.92
1948052--1948326	120	2.3	121	93	3	473	40	22	20	16	1.91
1948591--1948617	6	4.5	6	100	0	54	33	51	14	0	1.43
1949372--1949482	6	18.5	6	100	0	222	0	16	50	33	1.45
1949593--1949722	20	6.4	20	77	8	129	17	21	23	36	1.94
1949593--1949700	40	2.7	40	91	0	171	17	22	22	37	1.94
1949606--1949726	60	2.0	62	88	6	185	18	22	22	37	1.94
1949715--1949766	20	2.6	20	84	0	68	13	17	15	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1958407--1958448	12	3.3	12	83	16	50	4	35	0	59	1.19
1958273--1958466	96	2.0	96	90	2	309	14	27	11	45	1.80
1964173--1964229	29	2.1	27	84	12	73	43	0	5	50	1.24
1965350--1966281	2	462.0	2	64	20	218	46	3	4	44	1.43
1965407--1965746	11	31.5	11	67	19	96	42	2	6	48	1.41
1965408--1965883	33	14.9	33	69	20	127	43	3	5	47	1.42
1965616--1965816	19	10.1	19	73	14	106	42	1	2	52	1.25
1965767--1965886	11	10.6	11	73	15	77	44	5	4	45	1.47
1965902--1965978	31	2.5	30	83	8	93	45	5	6	42	1.52
1966155--1966287	7	18.7	7	78	17	109	54	1	3	41	1.25
1966977--1967013	16	2.3	16	90	0	56	10	37	5	45	1.62
1967415--1967483	11	6.3	12	71	20	62	13	1	7	78	1.02
1967415--1967472	21	2.8	21	100	0	116	13	0	8	77	0.98
1967415--1967477	14	4.5	14	74	7	56	14	0	7	77	0.97
1968336--1968404	30	2.3	30	80	9	79	10	2	5	81	0.97
1968525--1968595	8	9.7	7	89	10	83	11	11	1	76	1.10
1968524--1968583	8	7.8	8	96	3	106	11	11	0	76	1.02
1968518--1968614	16	6.6	15	80	9	78	9	8	3	79	1.03
1968579--1968618	12	3.2	12	92	3	62	7	2	7	82	0.92
1968330--1968614	7	39.0	7	72	14	109	13	6	4	75	1.16
1968659--1968709	18	2.9	17	88	5	66	13	5	5	74	1.19
1968666--1968727	23	2.6	24	76	5	63	11	4	8	75	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1970170--1970202	2	17.0	2	93	6	59	48	0	0	51	1.00
1970559--1970710	64	2.4	63	89	5	227	29	21	18	30	1.97
1976465--1976558	44	2.1	44	86	11	131	28	22	20	28	1.98
1976475--1976561	23	3.8	22	79	14	97	27	21	21	28	1.99
1978173--1978329	64	2.5	64	88	6	239	29	22	16	30	1.96
1979030--1979102	18	3.9	18	78	7	83	19	19	30	31	1.96
1985171--1985244	18	4.0	18	82	6	94	21	21	28	28	1.99
1994387--1994505	45	2.6	45	89	5	179	30	20	16	32	1.95
1996094--1996161	22	3.1	22	80	2	84	20	7	30	41	1.80
1997029--1997060	16	2.0	16	93	0	55	46	12	15	25	1.81
1997945--1997979	16	2.1	17	89	5	54	40	0	2	57	1.14
1998688--1998735	2	24.0	2	100	0	96	50	0	0	50	1.00
1999905--1999945	7	5.9	7	94	0	73	60	0	12	26	1.31
2000282--2000330	24	2.0	24	84	0	62	40	4	6	48	1.47
2001612--2001650	15	2.6	15	95	0	69	28	25	17	28	1.98
2002724--2002757	13	2.6	13	95	0	59	44	5	14	35	1.70
2003227--2003282	23	2.4	23	84	0	76	28	23	23	25	1.99
2009632--2009691	22	3.1	19	81	11	61	35	1	1	61	1.16
2009639--2009687	19	2.5	19	80	6	53	34	2	2	61	1.19
2010246--2010320	10	7.7	10	69	21	61	57	21	12	9	1.62
2010250--2010314	16	4.1	16	95	0	121	56	23	12	7	1.61
2011065--2011119	14	4.2	14	77	17	64	52	27	10	9	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2011058--2011122	24	2.7	24	87	0	103	52	24	10	12	1.71
2012654--2012914	21	12.3	21	70	15	157	20	19	22	37	1.95
2012654--2012921	42	6.3	42	92	1	437	20	19	22	36	1.95
2012654--2012921	128	2.1	126	92	1	455	20	19	22	36	1.95
2013473--2013535	6	10.5	6	94	0	108	0	12	52	34	1.40
2013651--2013746	21	4.6	21	94	0	165	28	28	20	22	1.99
2013628--2013740	42	2.7	42	90	2	167	30	26	20	22	1.98
2013625--2013746	63	2.0	61	86	3	172	29	25	21	23	1.99
2013755--2013926	21	8.2	21	83	6	224	25	22	22	30	1.99
2013756--2013919	83	2.0	83	89	3	249	25	21	21	30	1.99
2013729--2013926	104	1.9	104	94	0	351	25	22	21	31	1.98
2015095--2015227	30	4.2	30	80	13	160	48	0	2	49	1.13
2015095--2015227	15	8.5	15	80	11	142	48	0	2	49	1.13
2015230--2015272	22	2.0	22	95	0	77	32	0	13	53	1.41
2015207--2016461	54	23.4	54	77	15	579	33	0	13	52	1.41
2015284--2015326	22	2.0	22	100	0	86	34	0	13	51	1.42
2015338--2015380	22	2.0	22	95	0	77	32	0	13	53	1.41
2015446--2015531	22	3.7	22	76	11	100	31	0	16	52	1.44
2015476--2015549	22	3.2	22	67	14	67	27	0	20	52	1.46
2015306--2016397	80	13.6	79	77	16	489	33	0	14	52	1.41
2015360--2016071	182	3.9	182	80	9	732	33	0	14	52	1.42
2015574--2015616	22	2.0	22	100	0	86	34	0	13	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2015788--2015830	22	2.0	22	100	0	86	34	0	13	51	1.42
2015842--2015884	22	2.0	22	100	0	86	34	0	13	51	1.42
2015896--2015938	22	2.0	22	100	0	86	34	0	13	51	1.42
2015994--2016041	22	2.4	18	73	23	51	33	0	14	52	1.42
2016074--2016121	22	2.4	18	73	23	51	33	0	14	52	1.42
2016130--2016317	32	5.7	32	73	17	161	34	0	12	52	1.40
2016163--2016253	22	4.0	22	68	13	67	34	0	13	52	1.40
2016242--2016294	14	3.5	14	72	18	52	37	0	5	56	1.23
2016256--2016312	18	3.4	18	69	18	59	33	0	12	54	1.38
2016354--2016406	14	3.5	14	72	18	52	37	0	5	56	1.23

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15