genome.fa.s417.2.7.7.80.10.50.1000.9.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: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2005044

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1058 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)
1787257--1787299	21	2.0	21	86	4	59	37	16	25	20	1.93
1789627--1789677	12	4.1	12	79	16	59	33	0	0	66	0.92
1789635--1789677	3	14.7	3	90	4	70	34	0	0	65	0.93
1789683--1789736	23	2.4	22	78	6	54	42	25	9	22	1.83
1791097--1791133	2	18.5	2	100	0	74	51	0	0	48	1.00
1791368--1791431	2	32.0	2	100	0	128	50	0	0	50	1.00
1792733--1792779	24	2.0	22	88	8	67	17	6	0	76	0.98
1794490--1794543	21	2.6	21	82	5	65	16	11	7	64	1.47
1794457--1794568	48	2.4	47	82	8	138	17	12	8	61	1.54
1795494--1795530	19	2.0	18	89	5	56	45	0	21	32	1.52
1797057--1797116	9	6.8	9	77	11	52	80	1	16	1	0.89
1797056--1797115	8	6.8	9	79	20	65	78	1	18	1	0.92
1797048--1797114	7	9.1	7	72	15	55	77	1	17	2	0.97
1798803--1798890	43	2.0	43	95	0	158	25	32	10	31	1.89
1801147--1801201	22	2.5	22	84	0	74	40	12	10	36	1.79
1801875--1802208	116	2.9	115	92	1	544	30	20	20	28	1.98
1802072--1802134	20	3.0	22	68	17	69	38	22	22	17	1.93
1802385--1802421	3	12.7	3	88	11	51	32	0	0	67	0.91
1802385--1802422	10	3.9	10	86	3	51	34	0	0	65	0.93
1802427--1802480	23	2.4	21	80	17	63	40	27	11	20	1.86
1803800--1803836	2	18.5	2	100	0	74	51	0	0	48	1.00
1804852--1804914	2	31.5	2	96	0	117	50	1	0	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1813220--1813285	31	2.1	31	88	0	96	36	13	27	22	1.92
1814803--1814847	21	2.1	21	87	0	63	31	28	24	15	1.96
1815432--1815466	18	1.9	18	88	11	54	54	5	17	22	1.64
1815706--1815737	2	16.0	2	93	0	55	50	0	3	46	1.17
1816372--1816675	149	2.0	149	99	0	599	27	16	20	34	1.95
1816654--1816698	23	2.0	23	86	0	63	20	24	28	26	1.99
1817531--1817563	3	11.0	3	100	0	66	33	0	0	66	0.92
1818338--1818398	32	1.9	32	86	6	88	55	8	4	31	1.50
1818512--1818572	31	2.0	31	93	0	104	24	24	14	36	1.93
1850524--1850564	20	2.0	20	95	0	73	34	7	9	48	1.64
1852811--1852850	20	2.0	20	95	0	71	45	12	5	37	1.64
1852807--1852936	53	2.5	52	96	3	244	48	12	6	33	1.65
1852864--1852903	20	2.0	21	90	5	64	45	15	5	35	1.68
1857502--1857541	20	2.0	20	95	0	71	45	12	5	37	1.64
1857498--1857627	53	2.5	52	95	3	235	47	12	6	33	1.68
1857555--1857594	20	2.0	21	90	5	64	45	15	5	35	1.68
1868695--1868789	27	3.6	27	90	8	151	42	15	10	31	1.81
1872464--1872531	27	2.6	27	95	4	122	41	16	11	30	1.84
1882832--1882872	2	21.0	2	95	5	75	48	0	0	51	1.00
1891659--1891695	2	18.5	2	100	0	74	51	0	0	48	1.00
1894783--1894841	31	1.9	31	92	0	100	40	6	10	42	1.65
1894853--1894903	22	2.4	22	83	9	61	56	5	0	37	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1894866--1894908	22	2.0	22	100	0	86	51	9	0	39	1.34
1894868--1894916	22	2.2	22	88	3	71	55	10	0	34	1.34
1894924--1894997	22	3.2	22	70	16	60	55	17	0	27	1.42
1894968--1895247	32	9.7	32	76	21	305	52	11	0	35	1.41
1895064--1895106	22	2.0	22	100	0	86	51	13	0	34	1.42
1894951--1895242	54	5.2	54	89	8	458	52	11	0	35	1.41
1895066--1895114	22	2.2	22	88	3	71	55	14	0	30	1.40
1895118--1895160	22	2.0	22	100	0	86	51	13	0	34	1.42
1895120--1895168	22	2.2	22	88	3	71	55	14	0	30	1.40
1895257--1895302	22	2.0	22	87	4	65	54	15	0	30	1.41
1895297--1895429	15	8.5	15	81	11	151	51	1	0	46	1.15
1895271--1895452	45	3.9	46	78	12	178	50	4	0	45	1.26
1902299--1902339	20	2.0	21	90	9	66	36	4	34	24	1.77
1904417--1904450	2	17.0	2	100	0	68	50	0	0	50	1.00
1905930--1905972	21	2.0	21	81	0	50	27	27	25	18	1.98
1909120--1909162	21	2.0	21	86	0	59	30	27	23	18	1.98
1910072--1910096	4	6.2	4	100	0	50	28	0	24	48	1.52
1910354--1910690	30	11.2	30	98	0	647	24	19	23	32	1.97
1918396--1918425	15	2.0	15	100	0	60	13	26	46	13	1.80
1923820--1923851	16	2.0	16	100	0	64	43	25	6	25	1.77
1924947--1924981	18	1.9	18	88	0	52	28	8	11	51	1.67
1928496--1928535	17	2.4	17	87	8	55	32	0	7	60	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1932842--1932976	50	2.7	50	94	0	243	36	8	11	43	1.71
1933962--1934048	35	2.5	34	78	12	88	56	10	6	26	1.58
1934638--1934691	18	2.9	18	88	2	72	31	16	22	29	1.96
1936206--1936419	111	1.9	111	97	1	403	45	11	7	35	1.67
1936489--1936529	18	2.3	18	87	4	57	63	4	4	26	1.35
1936489--1936534	18	2.6	17	83	10	56	60	6	4	28	1.40
1952502--1952619	60	2.0	59	83	1	146	27	21	22	28	1.99
1961711--1962351	117	5.5	117	82	3	600	21	17	22	38	1.93
1961712--1962351	234	2.7	230	80	4	669	21	17	22	38	1.93
1962723--1962754	2	16.0	2	100	0	64	50	0	0	50	1.00
1962759--1962783	12	2.1	12	100	0	50	44	24	0	32	1.54
1965125--1965339	87	2.5	86	93	3	369	36	9	20	33	1.86
1965914--1965950	14	2.6	15	83	8	51	59	0	5	35	1.20
1966360--1966465	40	2.6	40	76	7	97	39	23	6	30	1.80
1968036--1968095	3	20.0	3	100	0	120	66	0	0	33	0.92
1970360--1970384	2	12.5	2	100	0	50	52	0	0	48	1.00
1981005--1981058	18	3.3	18	68	24	55	46	1	5	46	1.37
1980972--1981071	31	3.2	31	83	8	114	42	1	6	51	1.33
1981202--1981246	2	22.5	2	95	0	81	48	0	0	51	1.00
1982031--1982060	14	2.1	14	93	0	51	56	0	0	43	0.99
1982976--1983095	3	40.0	3	79	0	132	40	2	0	56	1.13
1982976--1983095	30	4.1	30	89	3	174	40	2	0	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983210--1983250	16	2.6	16	84	0	55	12	58	14	14	1.63
1994808--1994863	7	8.3	7	82	13	73	83	0	16	0	0.64
1994808--1994864	19	2.9	19	92	5	87	84	0	15	0	0.63
1994808--1994858	12	4.0	12	82	12	66	84	0	15	0	0.63
1995994--1996264	83	3.3	83	96	0	506	26	13	22	36	1.92
1997080--1997912	113	7.4	113	93	1	1359	36	15	19	28	1.92
1998258--1998368	3	37.0	3	77	0	114	41	2	0	55	1.14
1998258--1998397	24	5.9	24	82	13	157	44	2	0	52	1.15
1998482--1998519	16	2.4	16	90	0	58	7	60	15	15	1.57
1999707--1999746	12	3.1	13	82	10	55	40	0	0	60	0.97

Tables:   1   2   3   4   5   6   7   8   9

The End!