genome.fa.s8209.2.7.7.80.10.50.1000.7.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   28   29   30   

This is table  7  of  30  ( 3569 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)
1730200--1730316	42	2.7	43	81	5	105	35	23	14	25	1.93
1730239--1730326	42	2.1	42	91	0	140	36	23	15	23	1.94
1730239--1730326	21	4.2	21	76	2	79	36	23	15	23	1.94
1738413--1738590	90	2.0	90	93	2	304	44	5	11	38	1.64
1745164--1745340	90	2.0	89	92	1	291	46	6	10	36	1.64
1745813--1745923	31	3.5	31	96	1	195	18	18	21	40	1.91
1748433--1748488	3	18.7	3	92	0	94	37	0	0	62	0.95
1749184--1749247	23	2.8	22	85	4	83	26	26	26	20	1.99
1749267--1749582	103	3.1	103	94	2	564	37	24	11	26	1.89
1750064--1750101	20	1.9	20	88	0	58	10	31	34	23	1.89
1750123--1750166	20	2.3	19	80	7	52	18	18	29	34	1.94
1756213--1756276	23	2.8	23	92	0	83	28	23	26	21	1.99
1756292--1756612	103	3.1	103	96	0	597	38	24	12	25	1.90
1757158--1757197	21	1.9	21	89	0	62	17	20	30	32	1.95
1759211--1759244	18	2.0	17	88	11	52	32	0	0	67	0.91
1759438--1759480	19	2.2	20	84	12	54	58	0	2	39	1.11
1762198--1762238	15	2.9	14	80	20	57	21	12	7	58	1.58
1768894--1769769	46	19.2	46	95	1	1444	23	22	19	34	1.96
1768894--1769769	91	9.6	91	94	1	1461	23	22	19	34	1.96
1769925--1769949	2	12.5	2	100	0	50	52	0	0	48	1.00
1771320--1771353	18	2.0	17	88	11	52	32	0	0	67	0.91
1774876--1774948	25	2.8	26	74	15	71	67	8	4	20	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1774921--1774968	17	3.0	16	73	8	53	68	4	4	22	1.24
1777242--1777340	26	3.9	25	74	20	73	47	1	5	46	1.31
1780599--1780761	51	3.0	51	72	22	168	38	14	11	36	1.82
1782658--1782731	3	24.0	3	83	8	87	29	2	0	67	1.04
1782651--1782732	22	3.6	21	82	11	83	26	3	1	68	1.14
1782657--1782727	25	2.7	26	86	6	99	28	2	0	69	1.03
1783885--1783947	28	2.4	26	76	15	67	25	3	7	63	1.37
1783916--1783966	14	3.6	14	80	12	52	31	0	1	66	1.03
1784070--1784102	15	2.3	15	89	5	50	42	3	0	54	1.15
1788202--1788233	15	2.1	15	100	0	64	25	18	6	50	1.70
1789850--1789909	18	3.2	18	80	4	66	46	0	3	50	1.18
1790947--1790978	15	2.1	15	94	0	55	53	6	15	25	1.65
1795849--1795904	3	19.0	3	88	3	87	71	0	28	0	0.86
1796275--1796311	18	2.1	18	94	0	65	35	10	2	51	1.51
1797326--1797900	123	4.7	123	92	1	935	39	14	19	26	1.91
1798274--1798361	3	30.0	3	80	11	94	29	3	1	65	1.16
1798265--1798314	22	2.3	22	86	6	66	22	2	4	72	1.12
1798266--1798361	25	3.9	25	77	14	85	27	3	2	67	1.16
1798275--1798361	36	2.3	37	92	7	140	29	3	1	65	1.16
1798274--1798361	39	2.2	40	84	8	117	29	3	1	65	1.16
1799743--1799793	13	3.8	13	85	10	59	29	0	1	68	1.00
1799800--1799850	19	2.7	19	73	11	59	52	3	1	41	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800958--1801040	17	4.9	17	65	11	53	26	13	14	45	1.81
1800958--1801040	34	2.4	34	78	11	98	26	13	14	45	1.81
1801029--1801100	17	4.2	17	80	5	74	37	15	6	40	1.74
1802601--1802654	20	2.7	20	80	11	56	79	3	9	7	1.03
1808170--1808228	29	2.0	29	100	0	118	23	13	13	49	1.78
1820322--1820361	16	2.5	15	80	11	53	45	27	10	17	1.80
1820833--1821010	60	3.0	59	76	8	189	42	3	20	33	1.68
1820885--1820979	29	3.2	29	71	11	93	42	3	20	34	1.68
1822499--1822528	15	2.0	15	93	0	51	43	20	30	6	1.77
1835706--1835749	21	2.1	21	91	0	70	52	2	9	36	1.46
1838479--1838507	14	2.1	14	100	0	58	17	20	41	20	1.90
1839615--1839687	23	3.4	21	83	5	76	31	30	21	16	1.95
1842806--1842844	14	2.9	13	77	7	51	33	2	5	58	1.33
1848535--1848574	19	2.1	19	85	0	53	40	27	7	25	1.82
1849718--1850003	137	2.1	136	90	3	448	51	6	17	25	1.69
1850395--1850433	2	21.0	2	85	15	57	48	0	0	51	1.00
1850387--1850433	24	2.0	23	91	4	76	48	2	0	48	1.13
1857410--1857462	22	2.5	20	82	14	63	26	0	5	67	1.12
1859640--1859708	3	23.3	3	97	2	131	34	0	0	65	0.93
1866872--1866961	45	2.0	45	100	0	180	20	24	13	42	1.87
1868962--1868996	17	2.1	16	89	5	52	22	11	0	65	1.24
1870319--1870438	59	2.0	61	96	3	226	31	11	25	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871221--1871280	30	2.0	30	100	0	120	36	20	26	16	1.93
1872335--1872390	10	5.4	10	75	8	58	82	0	7	10	0.85
1873913--1874723	113	7.0	113	77	9	688	39	14	18	27	1.89
1874159--1874804	124	5.4	122	79	13	718	40	13	18	27	1.88
1874063--1874804	238	3.1	238	93	1	1251	40	13	18	27	1.88
1875033--1875080	3	16.3	3	91	4	80	33	0	2	64	1.05
1877565--1877615	24	2.1	24	81	0	57	43	21	11	23	1.85
1883521--1883550	13	2.4	13	94	5	53	43	0	30	26	1.55
1890895--1890967	17	4.3	16	76	11	65	30	16	13	39	1.87
1890973--1891019	18	2.7	18	83	12	62	40	19	6	34	1.77
1897705--1897757	20	2.7	20	96	0	97	35	3	22	37	1.72
1899262--1899406	50	2.9	49	89	4	218	28	17	23	29	1.97
1899901--1899947	22	2.0	24	84	15	64	42	0	4	53	1.20
1904717--1904780	21	2.9	23	66	17	62	29	20	21	28	1.98
1904715--1904791	23	3.4	23	67	13	61	29	20	19	29	1.97
1904705--1904807	44	2.3	44	86	6	154	30	17	21	31	1.96
1911337--1911367	12	2.6	12	94	0	53	48	0	0	51	1.00
1912860--1912927	29	2.4	30	85	9	90	39	1	4	54	1.30
1912850--1913005	80	2.0	80	85	5	217	39	3	7	50	1.46
1913776--1913873	42	2.4	42	76	8	103	26	13	5	55	1.59
1917668--1917750	29	2.8	29	88	1	121	43	10	13	32	1.78
1922435--1922515	29	2.8	29	88	0	117	41	11	13	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1926629--1926659	16	1.9	16	93	0	53	38	6	16	38	1.74
1936895--1936964	13	5.4	13	83	10	81	37	15	18	28	1.92
1937277--1937302	7	3.7	7	100	0	52	88	0	11	0	0.52
1937777--1939734	985	2.0	985	99	0	3889	32	15	18	32	1.93
1953281--1953313	16	2.1	16	100	0	66	57	24	12	6	1.57
1953379--1953427	10	4.7	10	76	18	55	59	18	10	12	1.60
1953386--1953427	16	2.6	16	84	0	57	59	19	9	11	1.59
1954165--1954212	10	4.4	10	78	19	51	52	22	12	12	1.73
1954152--1954220	24	2.9	24	88	0	102	55	18	11	14	1.69
1954172--1954227	14	4.3	14	80	17	57	51	25	12	10	1.71
1964935--1964972	19	2.0	19	94	0	67	31	13	18	36	1.89
1965606--1965638	16	2.0	17	94	5	59	24	6	0	69	1.10
1966997--1967240	27	8.8	28	66	19	129	25	22	26	25	2.00
1966997--1967243	55	4.5	55	80	7	293	25	22	26	25	2.00
1967360--1967516	81	1.9	81	89	2	244	31	21	30	16	1.95
1975109--1975134	13	2.0	13	100	0	52	38	7	15	38	1.76
1980544--1980599	23	2.4	23	90	0	94	25	3	33	37	1.73
1999649--2000271	55	11.6	55	86	5	841	29	28	15	27	1.96
1999649--2000271	108	5.8	109	84	6	812	29	28	15	27	1.96
1999649--2000272	163	3.9	164	88	5	877	29	28	15	27	1.96
2001216--2001251	8	4.6	8	93	3	56	22	2	0	75	0.94
2001214--2001253	16	2.6	15	84	7	62	20	5	0	75	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2022118--2022160	20	2.2	20	86	0	59	30	13	20	34	1.92
2022458--2022531	18	4.1	18	92	0	130	17	43	21	17	1.88
2027523--2027563	21	2.1	19	86	9	55	29	14	24	31	1.95
2028982--2029278	110	2.7	110	85	0	387	27	20	17	33	1.96
2028982--2029278	55	5.4	55	86	0	351	27	20	17	33	1.96
2029300--2029402	37	2.8	37	80	4	111	22	25	15	36	1.93
2030675--2030795	11	10.5	11	71	19	54	7	18	0	74	1.04
2030696--2030802	9	11.3	9	70	20	67	8	18	0	72	1.09
2030681--2030800	43	2.8	42	72	18	104	7	19	0	73	1.07
2030739--2030781	10	4.5	10	82	8	54	6	16	0	76	0.99

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   28   29   30