genome.fa.s9611.2.7.7.80.10.50.1000.7.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   27   

This is table  7  of  27  ( 3214 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)
1757963--1758027	34	2.0	33	82	11	82	60	0	0	40	0.97
1757984--1758034	17	2.9	18	77	5	52	56	0	0	43	0.99
1759731--1759788	30	1.9	30	83	13	75	36	10	5	48	1.60
1761496--1761556	12	5.3	12	74	18	51	32	0	1	65	1.02
1761522--1761674	64	2.4	64	92	3	256	41	0	2	55	1.13
1761669--1761730	19	3.3	19	78	15	58	37	1	0	61	1.06
1762189--1762248	31	1.9	31	93	0	102	43	10	6	40	1.64
1770605--1770678	36	2.2	33	80	11	78	44	8	1	45	1.41
1775484--1775841	179	2.0	179	98	1	700	24	31	15	29	1.95
1787136--1787224	28	3.0	28	80	6	79	35	8	13	41	1.76
1787166--1787224	28	2.1	28	87	0	82	35	8	13	42	1.75
1790582--1790676	48	2.0	47	97	2	181	37	8	18	34	1.82
1795871--1795952	29	2.8	29	94	1	137	32	14	9	42	1.79
1800519--1800600	29	2.8	29	94	1	137	32	14	9	42	1.79
1803024--1803061	20	1.9	20	100	0	76	36	10	28	23	1.88
1803217--1803291	37	2.0	37	82	10	91	49	2	1	46	1.24
1806121--1806152	2	16.0	2	100	0	64	50	0	0	50	1.00
1813749--1813803	21	2.5	22	77	11	69	50	0	0	49	1.00
1813750--1813797	20	2.3	21	82	10	62	50	0	0	50	1.00
1813749--1813804	20	2.7	21	71	18	53	51	0	0	48	1.00
1816417--1816504	32	2.8	32	89	3	126	25	21	21	31	1.98
1817433--1817457	12	2.1	12	100	0	50	36	0	32	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817866--1817897	15	2.1	15	100	0	64	37	0	31	31	1.58
1827601--1827661	29	2.1	30	96	3	115	6	16	18	59	1.58
1827602--1827653	16	3.4	16	69	15	56	5	19	11	63	1.47
1835341--1835392	23	2.2	24	80	10	63	44	0	1	53	1.11
1835517--1835569	27	2.0	27	92	0	88	37	16	3	41	1.67
1840571--1840657	35	2.5	34	77	18	90	55	9	8	27	1.60
1840648--1840724	34	2.2	34	84	11	95	63	16	1	18	1.38
1842983--1843040	17	3.7	16	75	11	57	63	1	1	32	1.14
1843353--1843413	29	2.1	29	93	0	104	42	6	22	27	1.78
1844036--1844089	2	27.0	2	100	0	108	50	0	0	50	1.00
1844208--1844244	2	18.5	2	94	0	65	45	0	2	51	1.15
1853315--1853372	2	30.0	2	93	6	102	50	0	0	50	1.00
1853821--1853859	16	2.5	16	87	4	53	33	7	25	33	1.84
1861900--1861938	21	1.9	20	85	15	53	10	25	12	51	1.71
1863862--1863897	2	18.0	2	100	0	72	50	0	0	50	1.00
1866373--1866457	26	3.3	26	94	0	152	49	20	8	22	1.75
1877744--1877774	2	15.5	2	100	0	62	48	0	0	51	1.00
1884357--1884399	2	21.5	2	100	0	86	48	0	0	51	1.00
1884752--1884786	16	2.1	18	89	10	56	57	0	0	42	0.99
1884798--1884842	22	2.0	22	83	8	56	37	2	4	55	1.32
1885285--1885541	120	2.2	120	82	5	315	32	17	10	39	1.84
1903683--1903843	70	2.3	69	95	1	286	38	6	37	18	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1905219--1905260	21	2.0	21	100	0	84	28	14	28	28	1.95
1914204--1914241	15	2.5	15	80	16	51	28	0	0	71	0.87
1916471--1916552	29	2.8	29	94	1	137	32	14	9	42	1.79
1921102--1921181	28	2.8	28	90	5	117	33	13	10	42	1.78
1922233--1922272	19	2.1	19	90	0	62	42	0	0	57	0.98
1925014--1925044	16	1.9	16	93	0	53	51	6	0	41	1.27
1925040--1925077	2	20.0	2	89	10	62	50	0	0	50	1.00
1925495--1925550	14	4.2	13	73	13	51	41	0	1	57	1.09
1925468--1925550	37	2.2	39	82	10	100	42	0	1	56	1.07
1925441--1925599	63	2.5	64	86	7	216	40	0	2	55	1.18
1925483--1925615	64	2.1	64	84	5	171	45	1	1	51	1.19
1926645--1926736	22	4.5	22	70	20	63	40	0	6	53	1.27
1926628--1926717	37	2.4	38	83	9	105	42	1	4	52	1.29
1926598--1926702	15	6.5	15	73	18	79	42	0	3	52	1.26
1926716--1927524	32	26.7	32	70	25	472	35	0	12	52	1.40
1926645--1927556	54	16.8	54	84	10	1107	35	0	11	52	1.39
1926748--1926790	22	2.0	22	100	0	86	34	0	13	51	1.42
1926802--1926844	22	2.0	22	100	0	86	34	0	13	51	1.42
1926856--1926898	22	2.0	22	100	0	86	34	0	13	51	1.42
1926962--1927004	22	2.0	22	100	0	86	34	0	13	51	1.42
1927016--1927058	22	2.0	22	100	0	86	34	0	13	51	1.42
1927047--1927099	14	3.5	14	72	18	52	37	0	5	56	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1927106--1927374	22	10.8	22	67	23	108	34	0	13	51	1.41
1927363--1927447	14	5.5	14	69	20	62	37	0	8	54	1.31
1927372--1927453	14	5.0	18	66	22	72	39	0	10	50	1.38
1927450--1927492	22	2.0	22	100	0	86	34	0	13	51	1.42
1927504--1927546	22	2.0	22	100	0	86	34	0	13	51	1.42
1927571--1927630	31	1.9	31	89	0	93	43	11	5	40	1.63
1928096--1928136	13	3.2	13	80	16	50	39	0	0	60	0.96
1928085--1928122	13	2.8	14	84	8	51	39	5	0	55	1.23
1928085--1928136	25	2.0	27	85	7	72	38	3	0	57	1.17
1929499--1929541	2	21.5	2	95	0	77	51	0	2	46	1.13
1930098--1930134	19	1.9	19	89	10	58	24	2	0	72	0.97
1930794--1930833	21	1.9	21	94	0	71	55	0	2	42	1.13
1946294--1946321	2	14.0	2	100	0	56	50	0	0	50	1.00
1959114--1959283	29	6.0	29	70	18	106	24	17	14	44	1.85
1959224--1959283	30	2.0	29	87	9	86	20	18	15	46	1.84
1961250--1961384	20	6.7	19	80	9	135	34	22	17	25	1.95
1961247--1961384	41	3.4	41	83	5	181	36	21	16	25	1.94
1961552--1961595	22	2.0	22	95	0	79	20	45	15	18	1.85
1961854--1961912	20	3.0	20	87	0	73	16	18	22	42	1.89
1962049--1962103	25	2.2	24	78	15	58	20	9	18	52	1.71
1963232--1963276	18	2.5	18	88	0	72	26	44	15	13	1.83
1963758--1963803	20	2.3	20	85	7	58	36	26	19	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1963769--1963824	20	2.8	20	81	2	69	39	21	21	17	1.93
1963797--1963888	33	2.8	33	91	0	157	48	20	17	13	1.80
1963758--1963893	19	7.6	19	70	17	67	44	22	19	14	1.86
1963905--1963995	14	5.9	14	74	20	83	10	17	23	48	1.79
1963900--1964011	33	3.4	33	96	1	199	12	18	21	47	1.81
1964416--1964502	40	2.1	40	85	4	120	21	42	14	20	1.88
1966092--1966158	19	3.5	19	97	0	125	52	16	16	14	1.75
1966194--1966281	20	4.4	20	78	5	106	15	21	25	37	1.93
1966172--1966261	40	2.4	36	82	12	103	16	20	22	41	1.90
1966495--1966544	20	2.5	20	80	0	73	22	18	22	38	1.94
1966571--1966622	20	2.5	21	87	3	70	21	25	17	36	1.94
1967411--1967462	24	2.2	24	89	0	77	23	17	21	38	1.93
1967637--1967673	12	3.1	12	100	0	74	72	0	27	0	0.84
1969939--1969997	19	3.4	19	73	22	74	45	18	22	13	1.84
1970123--1970159	14	2.6	14	91	0	65	45	24	0	29	1.53
1971555--1971634	42	1.9	42	84	0	106	22	17	38	21	1.93
1971856--1972035	91	2.0	88	88	8	263	46	18	12	22	1.82
1973767--1973822	14	3.6	14	74	21	58	39	25	25	10	1.87
1973743--1973841	33	3.0	33	95	1	171	40	23	25	11	1.87
1973719--1973939	19	12.1	19	81	11	239	45	20	21	11	1.83
1973935--1973998	18	3.5	17	82	16	74	10	17	26	45	1.81
1973945--1973996	18	2.8	18	91	5	77	11	19	25	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1974511--1974563	20	2.7	20	93	0	88	26	20	28	24	1.99
1974572--1974625	20	2.7	20	97	0	99	25	18	24	31	1.97
1974512--1974628	61	1.9	61	85	0	162	23	17	24	33	1.97
1974512--1974646	61	2.2	61	81	2	155	22	20	24	32	1.98
1974696--1974736	21	2.0	21	85	0	55	34	29	17	19	1.94
1987483--1987596	20	5.7	20	82	2	138	13	21	25	39	1.90
1987548--1987617	21	3.4	21	72	4	79	21	14	28	35	1.92
1987528--1987641	41	2.8	41	95	1	201	17	16	26	39	1.91
1987734--1987787	6	9.5	6	94	6	87	29	53	16	0	1.43
1988285--1988316	6	5.7	6	92	7	50	0	15	53	31	1.43

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   27