genome.fa.s8942.2.7.7.80.10.50.1000.9.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: VEPZ01008942.1 Hibiscus syriacus cultivar Beakdansim tig00112261_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2383254

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

This is table  9  of  11  ( 1310 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)
1839839--1839885	16	2.9	17	78	15	55	55	2	0	42	1.12
1841751--1841775	13	1.9	13	100	0	50	20	0	0	80	0.72
1843512--1843624	43	2.7	43	84	4	140	30	15	20	33	1.93
1843512--1843658	43	3.5	40	77	13	134	30	15	20	33	1.94
1843643--1843827	44	4.2	44	80	2	210	27	20	25	26	1.99
1843814--1843919	42	2.5	41	82	10	117	33	18	18	29	1.95
1848048--1849389	671	2.0	671	97	0	2549	30	20	18	30	1.96
1850501--1850544	22	2.0	22	100	0	88	27	13	18	40	1.88
1850504--1850554	22	2.3	22	89	0	75	25	11	17	45	1.83
1851046--1851101	25	2.2	25	100	0	112	25	10	42	21	1.85
1860400--1860643	73	3.3	73	76	8	199	42	8	12	36	1.74
1861091--1861675	100	5.9	101	82	6	624	36	14	11	37	1.82
1861806--1861860	20	2.8	20	100	0	110	45	10	12	30	1.77
1863711--1863775	26	2.5	26	87	0	94	26	20	16	36	1.93
1863711--1863775	13	5.0	13	82	0	76	26	20	16	36	1.93
1872654--1872723	34	2.1	32	89	5	104	21	31	15	31	1.95
1873005--1873046	21	2.0	21	90	0	66	28	26	21	23	1.99
1873152--1873218	19	3.5	19	87	0	80	35	11	10	41	1.76
1873283--1873342	29	2.0	31	90	6	97	41	16	6	35	1.75
1873757--1873828	17	4.2	17	78	3	72	41	8	12	37	1.73
1879079--1879119	3	14.0	3	94	5	75	65	0	0	34	0.93
1879273--1879529	134	1.9	135	90	2	410	26	17	29	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1879581--1879698	29	4.0	29	86	5	150	51	12	12	22	1.74
1879589--1879698	58	1.9	58	88	3	168	51	13	11	22	1.73
1879782--1880008	91	2.5	89	75	13	217	45	14	12	26	1.81
1879858--1880139	29	9.6	29	71	19	131	45	13	12	29	1.79
1879958--1880086	27	4.6	27	84	10	127	52	15	8	23	1.70
1880211--1880311	49	2.1	49	90	3	159	45	15	8	29	1.77
1880472--1880609	36	3.8	36	81	7	147	35	12	19	32	1.89
1880548--1880875	107	3.1	103	76	10	326	39	11	16	32	1.84
1881194--1881233	16	2.5	16	91	0	62	22	2	27	47	1.64
1884796--1884835	19	2.1	19	86	9	55	62	7	17	12	1.52
1892725--1892754	9	3.2	9	90	9	51	23	63	0	13	1.29
1894649--1894692	2	22.0	2	81	9	54	43	4	2	50	1.35
1896699--1896843	54	2.7	54	83	5	159	46	11	21	21	1.82
1896722--1896856	55	2.5	54	84	6	157	45	11	22	19	1.83
1900142--1900208	11	5.9	11	76	11	64	76	4	17	1	1.04
1900226--1900255	13	2.2	14	94	5	53	86	0	13	0	0.57
1902125--1902178	2	28.0	2	85	7	76	44	0	1	53	1.11
1907358--1907896	287	1.9	286	82	4	674	46	5	14	33	1.68
1908147--1908190	21	2.1	21	87	8	63	45	18	2	34	1.62
1908166--1908225	17	3.7	17	75	18	65	50	13	0	36	1.42
1908171--1908242	32	2.2	32	95	0	126	51	11	0	37	1.38
1909176--1909228	13	4.1	13	75	15	56	50	1	3	43	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1909203--1909302	38	2.5	41	80	8	116	47	3	5	45	1.40
1912083--1912154	19	3.8	19	81	5	83	31	15	2	50	1.58
1912080--1912154	38	2.0	38	86	5	107	30	14	2	52	1.56
1914688--1914758	28	2.4	30	81	4	92	28	16	11	43	1.83
1922004--1922063	23	2.9	20	85	9	68	23	33	25	18	1.97
1922025--1922088	20	3.1	20	84	8	67	25	31	26	17	1.97
1929171--1929198	12	2.3	12	100	0	56	14	25	32	28	1.94
1929566--1929675	57	2.0	55	81	3	130	20	30	2	46	1.64
1945193--1945363	27	6.3	27	92	0	288	23	39	13	23	1.90
1948585--1948625	20	2.0	21	85	4	57	29	9	4	56	1.53
1958915--1958953	16	2.4	16	95	0	69	30	12	28	28	1.93
1959729--1959764	16	2.2	16	90	9	56	77	0	16	5	0.94
1960807--1960914	50	2.2	51	80	12	118	68	0	8	22	1.22
1960932--1960979	5	9.2	5	84	6	60	77	2	2	18	0.97
1961120--1961170	16	3.2	16	72	25	54	72	0	3	23	1.01
1961122--1961176	20	2.8	20	73	24	55	72	0	3	23	1.00
1961086--1961179	31	2.7	34	82	12	104	65	1	8	24	1.27
1961216--1961258	18	2.4	18	92	7	70	74	0	4	20	1.00
1961891--1961946	24	2.3	24	84	3	67	60	10	1	26	1.40
1961940--1961968	12	2.3	13	94	5	51	58	3	0	37	1.15
1963052--1963170	39	3.1	39	77	10	136	48	0	14	36	1.49
1963167--1963201	18	2.0	18	88	5	54	65	5	0	28	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1963856--1963926	2	35.5	2	100	0	142	49	0	0	50	1.00
1965396--1965446	22	2.3	22	100	0	102	41	5	7	45	1.57
1965617--1965661	2	23.0	2	95	4	83	51	0	0	48	1.00
1970540--1970712	89	1.9	90	91	2	285	27	18	9	44	1.81
1971917--1971959	19	2.2	20	87	4	61	41	0	2	55	1.12
1972196--1972266	27	2.6	27	84	0	97	42	0	32	25	1.55
1972276--1972304	15	1.9	15	100	0	58	41	0	20	37	1.53
1972238--1972340	53	1.9	53	88	3	154	42	0	27	30	1.56
1972404--1972505	2	53.0	2	75	21	85	45	3	0	50	1.27
1972543--1972938	199	2.0	199	85	3	539	16	16	13	53	1.74
1973421--1973532	2	56.5	2	73	15	81	44	1	3	50	1.29
1990701--1990741	14	2.7	15	82	17	50	21	7	0	70	1.11
1993066--1993125	24	2.5	23	84	15	70	53	5	3	38	1.39
1993069--1993133	26	2.4	27	80	12	80	50	4	3	41	1.38
1993066--1993134	28	2.6	26	80	17	72	50	4	2	42	1.37
1993095--1993191	34	2.8	36	78	13	121	46	2	5	46	1.36
1993159--1993324	22	7.5	22	76	15	139	43	3	8	44	1.49
1993165--1993324	43	3.6	43	75	20	168	43	3	8	45	1.51
1993232--1993266	17	2.1	17	94	0	61	42	2	11	42	1.55
1993186--1993317	64	2.1	63	83	11	162	42	3	9	44	1.54
1993293--1993350	29	2.1	27	83	6	71	44	0	3	51	1.18
1993386--1993413	4	7.0	4	100	0	56	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1993365--1993430	12	5.3	12	74	16	55	27	0	1	71	0.95
1994421--1994476	20	3.1	18	78	17	62	60	7	1	30	1.33
1996171--1996218	17	3.0	15	77	14	51	56	27	2	14	1.50
2002011--2002053	20	2.2	20	83	8	52	37	4	2	55	1.33
2003496--2003542	23	2.0	23	91	0	76	46	0	0	53	1.00
2003519--2003587	34	2.0	33	81	10	77	43	0	0	56	0.99
2003589--2003637	13	3.8	13	83	2	64	14	14	53	18	1.74
2005590--2006517	437	2.1	436	89	1	1403	43	18	17	20	1.89
2006955--2006991	18	2.1	18	94	0	65	27	13	18	40	1.88
2007068--2007152	18	4.7	18	100	0	170	15	4	4	75	1.14
2007066--2007180	54	2.1	51	77	16	124	16	7	5	70	1.30
2007362--2007391	15	1.9	16	93	6	53	43	23	20	13	1.86
2014099--2014330	38	6.3	37	76	14	167	44	4	10	40	1.60
2014297--2014343	20	2.2	20	88	11	67	40	4	10	44	1.59
2014296--2014353	21	2.6	23	81	15	77	41	5	10	43	1.61
2014332--2014426	42	2.3	42	82	5	115	44	1	6	48	1.35
2014366--2014416	20	2.6	20	79	20	63	50	0	1	47	1.12
2014410--2014472	21	3.1	19	78	19	56	33	0	3	63	1.10
2014410--2014463	12	3.9	15	77	20	55	33	0	1	64	1.04
2014427--2014464	12	3.2	12	96	3	69	34	0	0	65	0.93
2014406--2014469	16	4.2	16	75	18	55	34	0	3	62	1.11
2014410--2014469	28	2.1	30	81	12	72	33	0	3	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2015745--2015807	5	12.0	5	78	9	54	23	1	3	71	1.09
2015745--2015807	16	4.0	15	72	11	54	23	1	3	71	1.09
2020615--2020662	23	2.1	23	84	0	60	35	10	18	35	1.85
2021135--2021196	22	2.8	23	82	4	74	38	20	4	35	1.74
2021533--2021597	25	2.6	25	97	0	121	36	12	10	40	1.78
2023993--2024727	180	4.1	181	94	3	1308	33	17	14	34	1.91
2024704--2024746	19	2.3	19	95	0	77	53	18	6	20	1.67
2023983--2025105	378	3.0	382	90	6	1732	33	17	14	34	1.90
2027736--2028499	199	3.8	200	94	0	1307	30	18	14	36	1.91
2028600--2028660	19	3.3	18	88	2	59	52	11	1	34	1.47

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