genome.fa.s7746.2.7.7.80.10.50.1000.7.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: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3674400

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  7  of  15  ( 1700 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)
1755047--1755086	20	1.9	22	90	10	66	37	37	10	15	1.80
1755301--1755371	35	2.1	32	89	7	106	32	15	30	21	1.94
1756362--1756399	3	13.0	3	86	5	51	68	2	28	0	1.03
1758321--1758399	21	4.0	21	73	18	89	20	39	27	12	1.89
1758327--1758398	36	2.0	36	91	0	117	20	37	27	13	1.91
1758348--1758377	15	2.0	15	100	0	60	26	33	26	13	1.93
1758424--1758465	21	2.0	21	100	0	84	14	38	28	19	1.90
1758504--1758545	21	2.0	21	100	0	84	23	19	28	28	1.98
1758574--1758613	20	1.9	22	90	10	66	37	37	10	15	1.80
1758828--1758897	34	2.1	32	89	5	104	31	15	31	21	1.95
1759453--1759479	6	4.5	6	100	0	54	0	14	51	33	1.43
1759592--1759644	22	2.4	22	93	0	97	37	28	16	16	1.91
1759652--1759691	21	1.9	21	84	0	53	32	30	17	20	1.95
1759709--1759766	19	3.1	19	92	0	89	25	15	27	31	1.96
1780126--1780178	26	2.0	26	82	7	63	39	15	20	24	1.91
1781264--1781346	24	3.5	24	70	18	64	25	10	15	48	1.78
1783308--1783379	21	3.4	21	98	0	135	23	23	29	23	1.99
1783425--1783479	22	2.6	21	88	5	76	34	23	23	18	1.96
1783499--1783557	23	2.8	21	78	16	68	23	20	30	25	1.98
1785514--1785566	26	2.0	26	82	7	63	39	15	20	24	1.91
1786671--1786716	24	1.9	24	81	0	56	19	19	19	41	1.91
1788496--1788688	107	1.8	107	97	0	368	44	5	4	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1789335--1789374	22	2.0	22	85	14	59	25	10	35	30	1.88
1789687--1789910	2	120.0	2	68	25	127	41	0	5	52	1.30
1789688--1789913	7	31.4	7	75	13	183	41	0	5	52	1.30
1790139--1790186	20	2.4	20	100	0	96	22	10	18	47	1.79
1793111--1793152	18	2.3	18	95	0	75	35	0	35	28	1.58
1793720--1793778	25	2.3	25	82	8	66	30	6	13	49	1.68
1794881--1794951	22	3.2	23	81	16	71	33	1	1	63	1.12
1794902--1794952	3	16.3	3	80	15	59	33	1	0	64	1.05
1794887--1794959	38	2.0	36	86	5	101	31	1	0	67	1.00
1794889--1794965	16	5.2	14	73	21	50	29	1	0	68	0.97
1798490--1798531	19	2.2	19	91	0	66	42	11	7	38	1.69
1802425--1802465	19	2.2	18	86	4	55	43	12	7	36	1.70
1806624--1806776	81	1.9	79	81	5	182	35	22	16	26	1.95
1807054--1807217	2	87.5	2	68	26	94	40	1	4	53	1.30
1807054--1807264	7	30.4	7	73	17	147	39	1	3	55	1.27
1807163--1807261	13	7.8	13	76	18	77	38	1	1	59	1.11
1807054--1807264	67	3.2	65	76	13	193	39	1	3	55	1.27
1808850--1809167	158	2.0	158	93	0	537	37	18	16	27	1.92
1810483--1810507	2	12.5	2	100	0	50	52	0	0	48	1.00
1810526--1810555	13	2.3	13	100	0	60	43	6	6	43	1.57
1810686--1810724	17	2.4	17	86	4	53	28	10	2	58	1.44
1814646--1814783	69	2.0	69	95	0	249	28	26	9	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1814721--1814764	20	2.3	19	81	11	54	22	25	6	45	1.77
1814788--1814824	20	1.9	19	89	10	58	45	10	24	18	1.81
1818390--1818564	59	3.0	59	75	10	153	33	21	4	40	1.74
1818690--1818857	60	2.9	57	78	7	178	39	7	22	31	1.81
1829443--1829490	2	24.0	2	100	0	96	50	0	0	50	1.00
1829858--1829910	21	2.5	21	84	0	70	20	26	18	33	1.96
1829900--1830054	20	7.7	20	81	2	193	39	20	20	20	1.93
1829900--1830052	61	2.5	61	95	0	270	39	20	20	19	1.93
1829900--1830054	41	3.8	41	84	4	197	39	20	20	20	1.93
1830607--1830699	20	4.6	21	81	10	106	50	18	18	12	1.78
1830607--1830701	40	2.4	40	82	7	122	50	17	18	12	1.77
1830747--1830801	14	3.6	14	73	21	56	9	23	23	43	1.82
1830729--1830850	33	3.5	33	85	8	154	10	22	19	46	1.81
1830760--1830850	20	4.9	20	74	17	81	10	24	19	45	1.83
1832537--1832912	94	4.1	93	94	2	616	21	12	18	47	1.81
1833003--1833078	39	2.0	38	92	2	125	50	21	21	7	1.74
1833003--1833118	19	6.3	19	78	13	125	50	23	18	7	1.73
1833124--1833245	19	6.6	19	69	14	94	14	18	19	46	1.84
1833722--1833788	21	3.2	21	66	6	55	23	35	20	19	1.95
1833670--1833788	42	2.8	42	81	5	107	22	36	18	22	1.95
1835268--1835319	19	2.7	19	90	0	86	48	21	19	11	1.80
1835325--1835475	19	8.7	19	66	21	98	11	23	19	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1835329--1835455	33	3.8	33	97	0	236	11	24	18	44	1.83
1835350--1835437	14	5.6	14	70	23	59	11	25	19	44	1.84
1835442--1835482	20	2.0	20	90	0	64	19	19	21	39	1.93
1835449--1835521	20	3.6	20	70	17	60	23	17	24	34	1.96
1837992--1838045	24	2.2	24	93	0	90	40	20	18	20	1.91
1837992--1838059	24	2.8	24	84	0	64	38	20	17	23	1.93
1838908--1839095	21	9.3	20	72	13	100	33	18	20	27	1.96
1838920--1839095	60	2.9	61	77	4	178	34	18	21	26	1.96
1842416--1842467	14	3.7	14	80	12	54	46	17	1	34	1.59
1846604--1846637	12	2.8	12	95	4	59	32	0	0	67	0.91
1851753--1851863	30	3.7	30	77	12	95	59	11	12	16	1.61
1851810--1851887	30	2.6	30	82	10	79	56	8	12	21	1.64
1852715--1852774	31	1.9	31	83	10	77	6	11	8	73	1.25
1853452--1853539	3	29.7	3	97	2	169	65	0	0	34	0.93
1853939--1854050	43	2.8	40	80	13	122	22	16	35	25	1.95
1854069--1854158	28	3.1	28	87	3	108	43	14	14	27	1.84
1854617--1854730	38	3.1	36	86	6	156	38	11	17	32	1.85
1860824--1861199	186	2.0	189	97	2	722	46	16	15	21	1.84
1862418--1862514	3	32.7	3	91	6	162	64	0	1	34	1.00
1864686--1864730	23	1.9	24	86	4	65	20	15	15	48	1.80
1870148--1870514	132	2.8	131	79	3	373	33	10	15	40	1.81
1871726--1871822	45	2.2	43	82	14	108	32	13	22	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1876722--1877604	134	6.6	133	82	3	1011	32	21	16	30	1.95
1876722--1877604	268	3.3	266	84	3	1128	32	21	16	30	1.95
1876726--1877604	402	2.2	401	84	3	1133	32	21	16	30	1.95
1877737--1877763	3	9.0	3	100	0	54	33	0	0	66	0.92
1879552--1879919	131	2.8	130	82	2	416	31	12	16	39	1.86
1883260--1883304	23	1.9	24	86	4	65	22	13	13	51	1.75
1884908--1884975	29	2.4	28	78	9	66	27	14	5	51	1.65
1885468--1885497	12	2.5	12	94	0	51	23	3	6	66	1.30
1886724--1886749	7	3.7	7	100	0	52	15	0	0	84	0.62
1887851--1887895	22	2.1	21	84	12	56	51	17	13	17	1.77
1886686--1888603	940	2.0	943	89	2	2904	38	13	13	34	1.84
1893403--1893461	30	1.9	31	86	6	84	33	10	18	37	1.85
1893548--1893638	23	4.1	22	80	7	112	17	19	26	36	1.94
1893549--1893636	44	2.0	45	84	6	117	18	20	23	37	1.94
1894155--1894215	27	2.3	27	100	0	122	44	11	3	40	1.57
1900863--1901425	243	2.3	242	82	3	673	34	19	11	35	1.87
1900853--1901425	162	3.5	161	82	2	661	33	19	11	35	1.88
1900853--1901425	81	7.1	80	82	1	599	33	19	11	35	1.88
1907913--1908485	81	7.1	81	87	0	752	32	20	10	36	1.87
1908540--1908580	21	1.9	21	85	5	55	60	7	2	29	1.36
1908892--1909072	94	1.9	95	85	3	249	23	21	13	41	1.88
1909077--1909120	17	2.6	17	100	0	88	29	27	13	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1909986--1910061	23	3.3	23	76	7	64	15	23	26	34	1.95
1910019--1910065	24	2.0	24	86	0	67	12	25	23	38	1.90
1918212--1918244	16	2.0	17	88	5	50	15	6	21	57	1.59
1919201--1919589	54	7.2	53	81	4	440	34	20	16	28	1.95
1930809--1930860	20	2.6	20	93	0	95	28	26	25	19	1.98
1932446--1932475	12	2.5	12	100	0	60	53	0	0	46	1.00
1932778--1932815	20	1.9	20	94	0	67	31	34	15	18	1.92
1932778--1932985	65	3.2	64	78	9	190	33	23	16	26	1.96
1934864--1935185	54	6.0	54	89	1	457	35	20	18	25	1.95
1934864--1935224	108	3.3	107	84	3	393	35	19	18	26	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15