genome.fa.s260.2.7.7.80.10.50.1000.10.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  10  of  26  ( 3102 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)
1857242--1857287	13	3.5	13	80	16	51	78	4	2	15	1.01
1857429--1857457	4	7.5	4	92	7	51	75	0	0	24	0.80
1857338--1857864	138	3.8	137	86	4	686	47	13	14	24	1.80
1857701--1857729	4	7.5	4	92	7	51	75	0	0	24	0.80
1857338--1857868	272	1.9	272	86	3	755	47	13	14	24	1.80
1857896--1857957	28	2.2	28	88	5	90	50	1	16	32	1.55
1864620--1864665	21	2.2	21	96	0	83	28	10	26	34	1.90
1868882--1868906	10	2.5	10	100	0	50	20	0	20	60	1.37
1870534--1870599	35	2.0	33	88	11	100	51	13	9	25	1.70
1871944--1871983	19	2.1	19	95	0	71	55	12	17	15	1.70
1874181--1874227	23	2.2	22	85	11	62	70	4	17	8	1.29
1879286--1879459	75	2.3	75	90	2	269	20	21	28	29	1.98
1879362--1879399	20	1.9	20	100	0	76	13	21	36	28	1.91
1882041--1882101	21	2.9	21	76	7	70	16	27	32	22	1.96
1887851--1888042	76	2.5	76	91	4	300	18	23	28	29	1.98
1895779--1895817	20	2.0	20	94	0	69	17	12	15	53	1.72
1895819--1895941	44	2.8	44	91	3	185	42	4	21	31	1.74
1895910--1895969	28	2.1	28	100	0	120	51	0	16	31	1.45
1895870--1896013	72	2.0	72	95	0	261	45	4	19	31	1.69
1895828--1896057	116	2.0	117	94	0	408	42	5	21	30	1.75
1895964--1896035	24	3.2	24	62	34	59	41	8	20	29	1.81
1895942--1896086	44	3.2	44	96	1	263	40	6	22	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1896002--1896075	24	3.2	24	62	27	61	37	8	22	31	1.84
1899657--1899704	22	2.2	22	84	0	60	31	43	6	18	1.75
1900097--1900199	20	5.5	20	70	13	58	17	18	22	41	1.90
1900082--1900186	20	5.6	19	72	16	76	20	19	20	39	1.93
1900082--1900220	73	1.9	73	83	2	181	23	17	19	40	1.91
1902099--1902148	20	2.5	20	90	0	82	38	28	20	14	1.91
1902156--1902192	19	1.9	19	94	0	65	5	13	29	51	1.63
1904177--1904238	14	4.3	14	75	6	52	40	0	12	46	1.42
1904337--1904410	20	3.7	20	90	0	112	43	27	18	10	1.83
1904404--1904446	20	2.2	20	83	4	52	27	20	23	27	1.99
1904453--1904785	20	17.9	20	75	15	293	24	18	22	33	1.97
1904493--1904649	54	2.9	54	92	1	244	24	19	21	34	1.97
1904413--1904723	74	4.2	74	78	11	341	24	19	21	34	1.97
1904621--1904777	54	2.9	54	92	0	260	22	17	24	35	1.95
1904940--1904980	18	2.3	18	86	0	64	17	2	29	51	1.58
1907015--1907051	14	2.6	14	91	4	56	5	21	21	51	1.68
1907238--1907290	24	2.2	24	93	0	88	39	20	18	20	1.92
1908112--1908320	20	10.2	20	74	11	131	23	16	24	34	1.95
1908112--1908238	41	3.1	41	95	0	218	22	16	25	34	1.95
1908112--1908283	82	2.1	82	82	6	206	22	15	26	35	1.94
1908348--1908384	19	1.9	19	88	0	56	24	16	27	32	1.96
1911558--1911694	60	2.3	60	85	7	181	29	15	18	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1913280--1913345	29	2.3	29	91	0	105	19	25	18	36	1.94
1915781--1915826	17	2.7	18	80	16	53	28	39	19	13	1.89
1916432--1916494	29	2.2	29	88	0	90	23	26	12	36	1.91
1919427--1919662	124	1.9	125	93	0	411	39	8	6	46	1.59
1921070--1921103	16	2.2	16	89	5	52	14	8	0	76	1.01
1924723--1924985	89	3.0	88	82	8	292	31	18	14	36	1.90
1925049--1925073	11	2.3	11	100	0	50	48	8	24	20	1.76
1927032--1927207	64	2.8	63	78	6	178	27	17	27	27	1.98
1927158--1927196	19	2.1	19	95	0	69	25	15	38	20	1.92
1934188--1934280	41	2.2	43	81	9	104	24	24	21	29	1.99
1934289--1934789	138	3.6	138	87	3	681	39	16	17	25	1.91
1934577--1934638	17	3.4	17	68	20	52	50	4	24	20	1.68
1934583--1934646	20	3.3	19	67	18	51	43	7	21	26	1.80
1935890--1935931	18	2.3	18	100	0	84	4	26	52	16	1.63
1939072--1939101	13	2.3	13	94	0	51	56	13	0	30	1.37
1942680--1942728	21	2.3	21	92	0	80	38	10	24	26	1.87
1942688--1942729	21	2.0	21	100	0	84	28	9	28	33	1.88
1945788--1945822	18	1.9	18	100	0	70	28	34	20	17	1.95
1955770--1955824	24	2.3	23	87	6	74	1	12	7	78	1.04
1956578--1956682	49	2.3	47	84	12	130	51	13	2	32	1.55
1957355--1957395	21	2.0	21	95	4	75	29	31	9	29	1.89
1959525--1959552	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1960231--1960452	53	4.2	53	90	0	345	36	15	17	30	1.91
1961792--1961831	19	2.1	19	100	0	80	42	17	0	40	1.49
1962680--1963499	409	2.0	409	100	0	1640	36	17	16	30	1.92
1964509--1964570	20	2.9	21	80	9	63	16	25	35	22	1.94
1970738--1970776	20	1.9	21	84	5	53	56	5	5	33	1.43
1981979--1982055	29	2.6	30	79	6	86	27	3	16	51	1.62
1983728--1983808	35	2.3	35	93	0	135	46	13	14	24	1.81
1986700--1986724	6	4.2	6	100	0	50	48	0	0	52	1.00
1990589--1990769	95	1.9	96	86	4	260	27	16	14	42	1.86
1990582--1990786	95	2.2	95	82	3	243	26	16	14	42	1.87
1990995--1991080	45	1.9	44	84	11	113	38	5	4	51	1.47
1993356--1993380	6	4.2	6	100	0	50	0	16	0	84	0.63
1999205--1999245	22	1.9	21	100	0	73	41	7	9	41	1.66
1999394--1999491	40	2.5	39	86	6	135	24	19	25	30	1.98
2002004--2002057	16	3.1	16	74	23	54	29	0	3	66	1.09
2002002--2002047	21	2.2	21	92	0	74	28	0	2	69	1.00
2002119--2002164	20	2.2	21	96	3	85	36	0	6	56	1.25
2003541--2003641	23	4.3	23	75	7	78	30	14	11	42	1.82
2003557--2003620	24	2.7	23	80	9	76	32	17	12	37	1.87
2004983--2005061	39	2.0	39	92	0	131	24	17	10	48	1.78
2007423--2007463	17	2.4	17	95	0	73	29	39	4	26	1.77
2011778--2011833	14	3.6	15	77	18	53	25	7	5	62	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2012845--2013216	184	2.0	187	98	1	723	38	22	9	29	1.85
2013304--2013444	2	74.5	2	70	22	83	41	2	3	51	1.33
2013301--2013450	7	21.9	7	70	16	93	41	2	3	52	1.32
2013301--2013450	41	3.7	39	77	12	126	41	2	3	52	1.32
2014932--2014966	12	2.9	12	95	0	61	31	0	2	65	1.07
2018806--2019001	77	2.5	79	80	2	207	33	22	15	29	1.94
2019154--2019453	133	2.3	133	82	1	350	34	19	15	30	1.93
2020919--2020978	15	3.9	15	72	14	50	21	5	3	70	1.22
2025154--2025206	24	2.4	21	87	9	70	71	0	16	11	1.13
2026120--2026168	21	2.5	20	87	9	66	30	14	22	32	1.93
2026699--2026797	51	1.9	52	89	2	155	36	12	23	28	1.90
2026751--2027183	81	5.3	81	88	1	584	36	12	23	28	1.91
2027084--2027133	23	2.2	23	85	3	66	40	12	24	24	1.88
2030119--2030153	18	1.9	18	88	0	52	22	11	11	54	1.68
2033762--2033787	2	13.0	2	100	0	52	50	0	0	50	1.00
2034195--2034242	3	16.0	3	100	0	96	66	0	0	33	0.92
2034656--2034721	28	2.3	28	82	12	89	57	6	16	19	1.60
2035936--2035979	21	2.1	21	95	0	79	20	25	15	38	1.92
2035943--2035988	21	2.2	21	84	0	56	23	26	17	32	1.97
2035998--2036056	20	3.0	20	84	0	82	45	22	13	18	1.84
2036178--2036235	22	2.7	22	86	5	75	20	43	10	25	1.84
2038781--2038878	21	4.7	21	81	5	117	20	34	20	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2038785--2038878	42	2.2	42	90	0	143	20	35	21	23	1.96
2040315--2040351	14	2.6	14	100	0	74	29	0	21	48	1.50
2040225--2040415	78	2.5	76	91	5	296	29	2	17	51	1.57
2040270--2040404	37	3.5	37	69	16	105	31	1	17	49	1.56
2040468--2040572	20	5.2	20	82	1	102	39	20	17	22	1.93
2040471--2040583	60	1.9	60	86	0	163	37	22	17	23	1.94
2040935--2040970	18	2.0	18	94	0	63	16	2	25	55	1.55
2043231--2043286	24	2.3	24	87	6	78	42	19	12	25	1.86
2043231--2043298	24	2.8	24	81	0	64	41	19	13	26	1.88
2044026--2044063	16	2.5	15	84	12	51	65	0	5	28	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26