genome.fa.s8162.2.7.7.80.10.50.1000.8.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: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3688897

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  8  of  16  ( 1865 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)
1758796--1758851	21	2.7	21	86	13	89	26	0	28	44	1.54
1758800--1758851	7	7.7	6	82	18	50	25	0	28	46	1.53
1759177--1759210	16	2.1	17	88	5	52	52	17	2	26	1.58
1759172--1759212	17	2.3	18	80	16	50	53	17	4	24	1.63
1761807--1761863	30	1.9	30	85	0	78	26	10	22	40	1.86
1765389--1765511	66	1.9	64	85	8	167	36	7	9	46	1.65
1765769--1765827	19	3.1	19	85	9	68	62	1	0	35	1.05
1768015--1768198	84	2.1	85	80	7	201	61	8	10	18	1.53
1768054--1768198	30	5.0	30	83	8	167	64	8	11	16	1.49
1768000--1768198	59	3.4	55	77	12	161	62	9	10	18	1.53
1768000--1768198	30	6.9	29	77	9	165	62	9	10	18	1.53
1769632--1769683	3	17.7	3	84	11	72	65	1	0	32	1.04
1769835--1769946	39	2.7	41	79	5	129	26	19	28	25	1.99
1769995--1770172	43	4.1	43	68	15	105	23	18	31	26	1.97
1769869--1770223	130	2.7	129	84	3	415	25	19	29	25	1.98
1770010--1770203	39	4.6	40	71	15	115	24	18	31	25	1.97
1770316--1770375	29	2.1	27	81	6	66	35	11	18	35	1.87
1770490--1770642	36	4.2	37	81	5	161	37	13	17	31	1.89
1770490--1770626	36	3.8	35	84	4	166	35	13	18	31	1.91
1770485--1770626	35	4.0	35	82	5	167	38	13	18	30	1.89
1770483--1770642	72	2.2	71	77	9	180	40	13	16	30	1.87
1771804--1771843	20	2.0	21	85	5	55	2	17	2	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1773071--1773114	13	3.3	13	76	17	54	54	13	18	13	1.71
1774463--1774675	59	3.6	60	83	1	189	61	9	11	17	1.56
1774515--1774694	30	6.0	30	81	1	200	61	9	11	17	1.55
1774515--1774688	59	2.9	59	86	1	222	62	9	11	16	1.54
1780404--1780430	6	4.5	6	100	0	54	33	0	51	14	1.43
1781683--1781760	24	3.3	23	85	5	102	35	20	17	25	1.95
1783086--1783157	34	2.1	35	89	5	112	33	26	27	12	1.92
1783236--1783317	24	3.5	24	77	9	87	32	19	18	29	1.95
1785750--1785790	17	2.4	17	87	0	55	29	29	24	17	1.97
1787830--1787911	24	3.5	24	81	3	103	34	20	17	28	1.95
1787820--1787911	47	1.9	48	86	2	132	35	20	15	28	1.93
1792577--1792624	24	2.0	24	83	0	60	35	18	12	33	1.89
1793090--1793442	176	2.0	176	98	0	688	26	15	9	48	1.75
1805498--1805534	2	18.5	2	100	0	74	48	0	0	51	1.00
1810129--1810202	29	2.5	28	78	8	76	40	24	5	29	1.77
1810255--1810295	18	2.3	18	91	4	66	12	19	51	17	1.76
1810298--1810343	10	4.6	10	80	20	60	36	28	19	15	1.92
1817303--1817376	29	2.5	28	82	8	85	39	25	5	29	1.78
1817407--1817458	18	2.9	18	91	2	88	13	21	48	17	1.81
1817461--1817494	9	3.7	9	84	7	50	32	26	23	17	1.97
1817468--1817501	10	3.5	10	84	8	52	41	29	17	11	1.85
1817461--1817501	19	2.2	19	100	0	82	36	29	19	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1818800--1818859	24	2.5	23	77	15	59	51	6	8	33	1.58
1830685--1830739	3	18.7	3	83	10	60	23	0	3	72	1.00
1831173--1831202	15	2.0	15	93	0	51	76	0	16	6	0.99
1831445--1831478	13	2.6	13	100	0	68	85	0	8	5	0.75
1843711--1843830	63	1.9	63	96	0	222	30	16	16	35	1.92
1847588--1848149	71	7.9	71	80	6	557	36	10	22	30	1.88
1853645--1853695	26	1.9	27	92	4	86	35	11	13	39	1.82
1853741--1853792	26	2.0	27	96	3	97	32	9	19	38	1.84
1853631--1853814	94	1.9	94	93	1	314	38	8	15	38	1.78
1853875--1854101	93	2.4	94	91	0	366	37	9	14	39	1.78
1855570--1855641	21	3.3	21	65	24	58	44	15	6	33	1.73
1860922--1861335	182	2.3	182	88	2	618	41	14	15	28	1.86
1863138--1863188	24	2.2	24	86	6	70	47	0	3	49	1.20
1863467--1863496	15	2.0	15	100	0	60	20	6	60	13	1.55
1863581--1863645	21	3.1	21	90	0	94	43	9	30	16	1.80
1863679--1863742	33	1.9	33	93	0	110	31	0	45	23	1.53
1863929--1863969	21	2.0	21	95	0	73	58	0	39	2	1.11
1865529--1865577	19	2.6	19	90	6	73	34	2	10	53	1.47
1865820--1866973	200	5.8	200	92	1	1868	36	15	15	31	1.89
1865820--1866973	399	2.9	396	91	2	1884	36	15	15	31	1.89
1868457--1868502	18	2.6	18	82	0	56	41	4	30	23	1.74
1868457--1868506	12	4.2	12	82	10	57	40	4	30	26	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1869955--1870063	51	2.1	53	81	11	138	37	16	20	25	1.93
1870128--1870475	177	2.0	177	90	2	556	38	14	17	29	1.89
1870305--1870746	200	2.2	199	89	3	667	38	14	15	31	1.88
1872245--1872950	200	3.5	196	81	7	748	39	13	15	30	1.87
1872988--1873107	64	1.9	64	94	0	213	33	10	12	43	1.77
1893170--1893214	20	2.2	21	88	4	65	60	2	4	33	1.29
1895080--1895124	23	1.9	23	90	4	72	48	6	13	31	1.68
1909826--1909859	17	2.1	16	89	10	52	32	23	8	35	1.86
1913739--1913782	20	2.3	19	84	4	52	36	25	9	29	1.86
1914592--1914680	42	2.1	42	93	0	151	25	11	28	34	1.90
1919108--1919166	30	2.0	30	86	6	84	38	40	10	10	1.73
1920770--1920824	14	3.9	14	83	7	67	20	3	1	74	1.06
1922820--1922849	2	15.0	2	100	0	60	50	0	0	50	1.00
1923463--1923505	21	2.0	21	90	0	68	27	13	27	30	1.95
1924114--1924153	18	2.2	18	100	0	80	45	12	15	27	1.82
1926756--1926807	20	2.6	20	96	0	95	34	17	15	32	1.91
1930583--1930610	2	14.0	2	100	0	56	50	0	0	50	1.00
1931468--1931500	2	16.5	2	100	0	66	51	0	0	48	1.00
1931660--1931701	13	3.2	13	86	0	57	40	16	16	26	1.90
1932832--1932882	20	2.5	20	96	0	93	33	19	19	27	1.96
1934816--1934861	23	2.0	23	100	0	92	21	17	13	47	1.81
1935581--1935624	21	2.1	21	86	0	61	75	4	15	4	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1936899--1936995	22	4.4	22	79	10	99	38	21	19	20	1.94
1936913--1936996	44	1.9	44	85	4	116	35	20	21	22	1.96
1936912--1937007	22	4.3	23	78	12	103	36	20	20	21	1.95
1938023--1938055	14	2.4	14	100	0	66	42	36	9	12	1.74
1941400--1941649	87	2.9	87	97	0	473	42	10	14	32	1.79
1941762--1942279	260	2.0	246	88	5	759	31	16	14	38	1.89
1944997--1945567	183	3.1	183	95	1	993	33	16	14	35	1.89
1946777--1946842	3	22.0	3	87	0	78	24	33	6	36	1.80
1946778--1946859	12	6.8	12	88	0	83	21	32	7	37	1.81
1949049--1949074	13	2.0	13	100	0	52	53	0	0	46	1.00
1950430--1950486	3	19.0	3	88	0	87	61	0	0	38	0.96
1950718--1951616	113	8.0	113	86	2	1229	27	18	15	37	1.92
1952335--1953128	83	9.6	83	95	0	1254	36	23	13	26	1.92
1954101--1954148	10	4.5	10	84	10	51	0	16	0	83	0.65
1954102--1954148	21	2.2	22	88	3	69	0	17	0	82	0.66
1954101--1954150	16	3.1	16	83	13	66	0	16	0	84	0.63
1954116--1954150	13	2.7	13	83	16	54	0	14	0	85	0.59
1954106--1954151	12	4.1	12	83	11	62	0	17	0	82	0.67
1964758--1964808	19	2.7	18	72	16	50	66	3	3	25	1.26
1964797--1964835	11	3.6	11	82	3	53	64	0	0	35	0.94
1964795--1964838	21	2.2	20	91	4	70	68	0	0	31	0.90
1965492--1965517	13	2.0	13	100	0	52	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1965498--1965548	16	3.4	16	80	17	56	43	0	1	54	1.11
1966863--1966939	12	6.4	12	82	5	66	58	0	0	41	0.98
1966872--1966943	3	24.0	3	85	5	101	62	0	0	37	0.95
1966863--1966939	24	3.2	24	88	3	102	58	0	0	41	0.98
1966978--1967552	200	2.9	199	95	1	1028	30	18	14	35	1.91
1967786--1967834	19	2.6	19	96	0	89	55	10	2	32	1.45
1969623--1969688	33	2.0	33	87	0	96	22	46	0	30	1.52
1969722--1969782	21	2.9	21	90	0	86	19	29	11	39	1.87
1971701--1972151	172	2.6	174	87	6	615	26	16	14	42	1.87
1973536--1973585	16	3.1	17	83	13	61	32	0	0	68	0.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16