genome.fa.s7776.2.7.7.80.10.50.1000.10.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: VEPZ01007776.1 Hibiscus syriacus cultivar Beakdansim tig00110057_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2207776

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

This is table  10  of  11  ( 1243 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)
1928562--1928606	22	2.1	21	83	4	54	33	0	2	64	1.06
1932391--1932429	17	2.3	17	90	0	60	33	0	0	66	0.92
1935214--1935251	20	1.9	20	94	0	67	42	21	15	21	1.89
1941845--1941870	2	13.0	2	100	0	52	50	0	0	50	1.00
1944218--1944251	17	2.1	16	88	5	50	26	5	0	67	1.13
1944444--1944476	14	2.4	14	94	0	57	24	27	27	21	1.99
1944706--1944801	29	3.3	29	82	8	97	27	16	10	45	1.80
1948039--1948646	57	10.7	57	90	1	907	33	19	10	36	1.86
1948567--1948728	84	1.9	83	96	3	299	30	17	11	40	1.85
1948650--1948891	57	4.2	57	93	2	396	33	19	10	37	1.86
1948510--1948785	141	2.0	140	92	2	464	32	18	10	38	1.85
1948453--1948844	198	2.0	197	93	1	669	32	18	10	37	1.86
1948396--1948891	255	1.9	254	94	1	868	32	18	11	37	1.86
1952435--1952496	28	2.2	28	88	5	90	37	38	4	19	1.73
1953844--1954242	59	6.7	58	74	14	285	31	10	18	39	1.85
1953849--1954164	124	2.6	122	81	8	358	33	9	18	37	1.84
1953948--1954242	56	5.0	58	77	10	278	31	11	18	38	1.86
1954978--1955041	20	3.2	20	70	12	51	39	9	21	29	1.85
1955062--1955573	116	4.4	116	78	8	459	42	16	19	22	1.89
1955078--1955522	232	1.9	231	82	4	547	42	16	19	22	1.89
1957770--1957835	29	2.2	29	84	7	80	27	18	10	43	1.82
1962886--1962944	31	1.9	31	92	0	100	23	16	15	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1968701--1968726	11	2.4	11	100	0	52	26	7	7	57	1.54
1969478--1969619	42	3.5	42	80	2	146	45	19	9	26	1.79
1970033--1970071	16	2.3	18	86	8	55	71	5	0	23	1.05
1970033--1970074	18	2.3	18	84	8	50	71	4	0	23	1.05
1970436--1970522	31	2.9	30	74	6	77	34	6	2	56	1.39
1970436--1970550	60	1.9	60	81	0	140	33	9	2	53	1.47
1971023--1971133	58	1.9	58	84	0	150	44	1	20	33	1.62
1971451--1971601	80	1.9	78	86	4	214	35	10	16	37	1.83
1973384--1973606	103	2.2	104	82	5	256	38	11	10	39	1.76
1974223--1974284	24	2.7	25	76	19	71	37	0	0	62	0.95
1974237--1974284	18	2.6	18	81	12	53	37	0	0	62	0.95
1974223--1974285	21	2.8	22	76	7	65	38	0	0	61	0.96
1974878--1974916	19	2.1	19	95	0	69	41	10	5	43	1.61
1975059--1975100	17	2.5	17	88	3	68	40	16	2	40	1.62
1986687--1986757	36	2.0	35	94	2	124	30	5	15	47	1.68
1989547--1989611	21	3.4	21	62	24	52	30	4	16	47	1.67
1992733--1992757	2	12.5	2	100	0	50	0	48	0	52	1.00
1996566--1996644	29	2.8	28	77	12	79	45	3	6	44	1.47
1996567--1996661	28	3.4	27	81	8	75	44	5	7	43	1.54
1996900--1996937	18	2.1	19	85	5	51	50	0	0	50	1.00
1997177--1997206	2	15.0	2	92	0	51	50	3	0	46	1.18
2001098--2001122	3	8.3	3	100	0	50	0	0	32	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2004754--2004784	14	2.2	14	100	0	62	25	9	51	12	1.70
2008410--2008453	22	2.0	21	86	4	61	40	2	2	54	1.25
2009438--2009494	19	3.3	17	83	11	64	73	0	3	22	0.98
2010555--2010613	31	1.9	31	82	3	75	38	6	18	35	1.78
2011372--2011441	30	2.3	31	82	2	79	31	7	27	34	1.84
2012166--2012269	45	2.3	46	86	5	140	29	23	17	29	1.97
2017194--2017290	44	2.2	44	85	10	128	27	24	20	26	1.99
2017213--2017293	23	3.6	22	75	14	85	25	24	22	27	2.00
2018753--2018876	47	2.7	45	86	6	169	32	23	8	36	1.84
2018934--2019062	59	2.2	59	88	0	186	28	25	17	27	1.98
2025977--2026102	47	2.8	45	88	5	182	30	23	7	37	1.84
2026211--2026340	59	2.2	60	85	1	172	29	26	16	27	1.97
2029982--2030016	17	2.1	17	100	0	70	34	0	42	22	1.54
2029977--2030019	17	2.3	19	80	19	63	32	0	48	18	1.48
2030401--2030554	57	2.5	61	75	16	167	32	22	16	27	1.96
2030524--2030572	19	2.6	19	87	9	66	24	28	18	28	1.98
2032151--2032214	22	2.9	22	88	0	92	28	21	21	28	1.99
2035471--2035528	31	1.9	31	82	3	73	39	6	18	34	1.78
2037614--2037656	22	1.9	23	90	4	70	30	18	23	27	1.98
2040549--2040579	2	15.5	2	100	0	62	51	0	0	48	1.00
2045066--2045109	4	11.0	4	86	13	56	72	0	0	27	0.85
2045070--2045108	20	2.0	20	90	9	64	74	0	0	25	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2046772--2046800	8	3.8	8	95	4	51	13	13	13	58	1.63
2047953--2048041	18	5.2	17	73	17	78	80	5	13	0	0.87
2047960--2048020	13	5.1	12	82	9	63	80	6	13	0	0.90
2047954--2048050	22	4.4	21	75	17	81	80	5	12	2	0.96
2047953--2048041	12	7.6	12	72	6	58	80	5	13	0	0.87
2047960--2048041	11	7.3	12	72	17	54	80	6	13	0	0.89
2047953--2048032	31	2.6	30	80	18	78	81	5	13	0	0.85
2049618--2050567	211	4.5	212	87	3	1314	33	24	18	23	1.97
2049631--2050567	106	8.9	106	87	3	1277	33	24	18	23	1.97
2051266--2051362	37	2.6	37	85	0	131	40	16	11	31	1.84
2051901--2051959	19	3.1	19	79	11	59	30	5	0	64	1.15
2052130--2052165	18	1.9	19	88	5	56	30	5	0	63	1.17
2052275--2052308	16	2.2	16	89	5	52	14	8	0	76	1.01
2053904--2053946	2	22.0	2	95	4	79	51	0	0	48	1.00
2054906--2054936	3	10.3	3	100	0	62	32	0	0	67	0.91
2056893--2056985	12	7.8	12	70	0	69	24	39	20	15	1.91
2056909--2057018	24	4.6	24	82	0	103	24	40	22	11	1.87
2058988--2059016	7	4.1	7	100	0	58	55	0	13	31	1.39
2060061--2060137	40	1.9	40	91	0	127	49	16	5	28	1.67
2061562--2062003	222	2.0	212	86	7	611	30	12	16	39	1.86
2062375--2062421	18	2.7	17	83	3	58	27	27	8	36	1.86
2063595--2063709	20	5.7	20	80	6	115	35	26	16	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2063592--2063729	41	3.4	41	82	2	170	37	24	15	21	1.93
2063896--2063939	22	2.0	22	95	0	79	20	45	15	18	1.85
2064202--2064260	20	3.0	20	87	0	73	15	18	22	44	1.87
2066137--2066203	20	3.4	20	81	2	73	38	23	22	14	1.92
2066192--2066250	14	3.9	14	76	20	64	49	23	16	10	1.77
2066176--2066267	33	2.8	33	94	0	157	47	19	19	13	1.81
2066176--2066272	19	5.6	19	68	22	79	46	19	20	13	1.83
2066319--2066384	20	3.3	20	91	0	105	15	24	25	34	1.94
2066358--2066410	20	2.7	20	87	0	70	24	13	28	33	1.93
2066319--2066404	40	2.2	40	85	4	111	17	20	26	34	1.95
2066760--2066828	21	3.3	20	74	6	66	24	40	15	18	1.90
2066750--2066840	41	2.2	42	88	2	139	21	41	15	20	1.89
2068252--2068290	14	2.8	14	84	0	51	35	0	17	46	1.49
2068513--2068584	20	3.6	20	86	0	99	16	20	22	40	1.91
2068811--2068887	20	3.8	20	94	0	127	28	20	27	23	1.99
2068877--2068928	20	2.5	21	87	3	70	21	23	17	38	1.93
2068939--2069035	20	4.8	20	96	0	158	23	28	19	27	1.98
2068957--2069050	20	4.7	20	89	5	79	25	26	19	28	1.98
2069781--2069834	24	2.2	24	90	0	81	22	16	20	40	1.91
2070009--2070033	12	2.1	12	100	0	50	72	0	28	0	0.86
2072361--2072419	19	3.4	19	68	22	65	45	15	22	16	1.84
2072361--2072487	33	3.8	33	91	0	182	46	17	22	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2072487--2072530	19	2.3	19	92	0	70	13	18	27	40	1.88
2074373--2074557	91	2.0	90	87	8	266	48	18	10	22	1.79
2076224--2076319	33	2.9	33	92	1	156	40	22	23	12	1.88
2076196--2076341	19	8.1	19	73	17	123	43	19	23	13	1.86
2076337--2076408	33	2.2	33	85	5	92	13	19	22	44	1.86
2076354--2076429	33	2.3	34	84	6	93	14	19	22	43	1.87
2076961--2077072	20	5.6	20	79	4	118	23	18	19	38	1.93
2076959--2077072	41	2.8	40	80	5	122	24	18	19	37	1.94
2079859--2079893	4	8.5	4	93	6	61	25	25	0	48	1.51
2085137--2085273	39	3.5	39	86	2	177	24	24	30	21	1.99

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