genome.fa.s8242.2.7.7.80.10.50.1000.9.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  9  of  73  ( 8740 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)
1742838--1742885	21	2.3	21	86	10	71	20	0	2	77	0.88
1746283--1746340	30	2.0	30	82	3	73	36	17	8	37	1.80
1750478--1750513	16	2.2	16	95	0	63	22	25	22	30	1.99
1750483--1750531	19	2.8	17	82	11	55	26	22	20	30	1.98
1750747--1750835	39	2.3	39	84	3	108	30	25	25	17	1.98
1752137--1752193	30	1.9	30	85	0	78	33	17	7	42	1.76
1754484--1754579	31	3.1	31	100	0	192	39	22	9	28	1.85
1759227--1759279	27	2.0	26	92	3	88	20	18	16	43	1.88
1759230--1759282	13	4.0	13	85	2	70	22	20	15	41	1.89
1763520--1763549	15	2.0	15	100	0	60	33	20	20	26	1.97
1763572--1763676	29	3.5	29	80	10	120	19	35	31	14	1.91
1763663--1763744	29	2.8	29	92	0	128	20	36	31	10	1.88
1763760--1763808	22	2.2	22	92	0	80	6	53	16	24	1.66
1764121--1764156	17	2.1	17	100	0	72	16	0	41	41	1.48
1764290--1764395	30	3.5	30	84	8	135	38	0	15	45	1.52
1764448--1764481	15	2.2	16	94	5	61	38	0	5	55	1.24
1766960--1766988	11	2.6	11	100	0	58	51	10	0	37	1.36
1766987--1767395	12	33.0	12	71	17	227	44	10	2	43	1.51
1766982--1767386	26	15.7	26	76	15	308	44	9	2	43	1.50
1767057--1767386	52	6.3	52	76	14	347	43	9	2	43	1.50
1767109--1767360	87	2.7	97	83	14	382	44	10	2	42	1.51
1766921--1767434	211	2.4	208	84	8	614	45	9	1	42	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1767408--1767454	12	4.1	11	83	8	58	42	8	0	48	1.33
1767115--1767459	98	3.7	92	78	17	315	44	10	2	43	1.49
1767627--1767686	14	4.1	14	87	8	84	41	6	1	50	1.39
1767645--1767690	17	2.6	17	86	10	58	41	4	2	52	1.33
1767668--1767827	49	3.1	57	90	9	172	46	10	0	43	1.38
1767689--1767827	49	2.8	49	98	0	269	46	11	0	41	1.40
1771054--1771096	22	2.0	22	86	9	61	53	13	0	32	1.41
1771610--1771653	21	2.1	21	91	0	70	54	15	0	29	1.42
1772033--1772158	65	1.9	65	90	0	198	26	15	31	26	1.95
1772281--1772333	16	3.1	16	81	8	61	24	45	11	18	1.82
1772293--1772348	19	2.8	20	89	5	87	23	44	12	19	1.84
1772398--1772502	29	3.6	29	94	0	174	7	24	36	31	1.84
1773423--1773459	17	2.2	17	90	0	56	29	13	13	43	1.82
1773430--1773464	17	2.1	17	88	0	52	28	14	14	42	1.84
1776733--1776899	76	2.2	75	86	5	221	29	1	11	56	1.45
1777560--1777602	18	2.4	18	92	0	68	20	6	0	72	1.08
1777641--1777733	33	2.7	34	79	14	102	23	4	0	72	1.03
1777673--1777697	11	2.3	11	100	0	50	24	0	0	76	0.80
1777670--1777738	26	2.6	25	73	11	66	24	1	0	73	0.91
1783252--1783380	5	25.8	5	73	8	102	20	5	1	72	1.13
1785322--1785363	12	3.5	12	81	12	50	35	0	4	59	1.19
1786094--1786151	7	8.1	7	75	21	50	24	3	0	72	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1786096--1786154	15	4.1	14	75	16	59	22	3	0	74	0.96
1786094--1786187	38	2.6	36	83	9	111	26	3	0	70	1.03
1786128--1786205	38	2.1	38	85	0	102	29	3	0	66	1.09
1787723--1787776	21	2.6	21	90	0	81	29	31	9	29	1.88
1788798--1788889	38	2.4	37	80	10	105	15	14	27	43	1.85
1792163--1792217	27	2.0	27	82	6	67	47	3	5	43	1.44
1794383--1794428	15	3.1	15	83	0	65	15	26	15	43	1.85
1794894--1794918	2	12.5	2	100	0	50	48	0	0	52	1.00
1795817--1795850	17	2.0	17	88	0	50	26	14	14	44	1.84
1799955--1799997	18	2.4	18	88	0	59	20	6	2	69	1.23
1800049--1800088	20	2.2	18	86	13	55	15	7	0	77	0.98
1805612--1805729	5	23.8	5	77	8	80	20	8	0	70	1.18
1805598--1805729	15	9.0	15	68	20	82	20	9	0	69	1.20
1805612--1805670	26	2.3	26	88	2	84	16	6	1	74	1.11
1805611--1805677	31	2.2	31	88	0	98	16	7	1	74	1.11
1807676--1807703	12	2.3	12	100	0	56	46	0	0	53	1.00
1808310--1808348	18	2.2	18	90	0	60	20	7	0	71	1.10
1808400--1808449	20	2.7	18	80	17	57	18	4	0	78	0.91
1808385--1808490	38	2.8	38	76	11	101	27	2	0	68	1.09
1808374--1808486	23	5.1	22	69	18	67	25	3	0	69	1.10
1809359--1809412	21	2.6	21	90	0	81	29	31	9	29	1.88
1814952--1815043	38	2.4	37	80	10	105	15	14	27	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1823137--1823197	18	3.3	19	78	15	56	26	19	16	37	1.93
1824094--1824123	2	15.0	2	100	0	60	50	0	0	50	1.00
1825541--1825578	18	2.1	19	90	5	60	23	2	0	73	0.95
1825541--1825578	19	2.0	19	89	0	58	23	2	0	73	0.95
1825531--1825595	15	4.6	14	73	22	57	26	3	1	69	1.12
1826744--1826792	20	2.5	20	100	0	98	16	6	42	34	1.73
1826888--1826919	2	16.0	2	100	0	64	50	0	0	50	1.00
1828801--1829133	43	7.7	43	89	2	472	36	24	21	18	1.95
1833326--1833494	43	3.9	43	79	3	169	37	24	20	17	1.94
1833326--1833488	86	1.9	87	87	3	240	36	23	21	17	1.94
1836728--1836784	28	2.0	28	100	0	114	35	26	21	17	1.95
1840849--1840889	20	2.1	19	86	4	55	31	2	4	60	1.30
1847106--1847176	23	3.1	23	70	11	65	19	18	28	33	1.95
1851659--1851712	14	3.6	14	82	12	56	72	5	0	22	1.05
1855960--1856069	50	2.2	50	80	8	116	15	19	21	43	1.87
1856669--1856723	27	2.0	27	82	6	67	47	3	5	43	1.44
1858888--1858933	15	3.1	15	83	0	65	15	26	15	43	1.85
1859400--1859428	2	14.5	2	100	0	58	48	0	0	51	1.00
1860325--1860358	17	2.0	17	88	0	50	26	14	14	44	1.84
1864467--1864509	18	2.4	18	92	0	68	20	6	0	72	1.08
1864554--1864641	38	2.2	42	82	10	103	22	4	0	72	1.02
1870138--1870247	5	22.2	5	72	12	75	20	6	0	71	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1872194--1872235	12	3.5	12	81	12	50	35	0	4	59	1.19
1872967--1873024	7	8.1	7	75	21	50	24	3	0	72	1.00
1872969--1873027	15	4.1	14	75	16	59	22	3	0	74	0.96
1872967--1873060	38	2.6	36	83	9	111	26	3	0	70	1.03
1873001--1873078	38	2.1	38	85	0	102	29	3	0	66	1.09
1874596--1874649	21	2.6	21	90	0	81	29	31	9	29	1.88
1875676--1875767	38	2.4	37	80	10	105	15	14	27	43	1.85
1877961--1878296	43	7.8	43	91	0	510	34	24	22	18	1.96
1882622--1882785	43	3.8	43	86	0	211	35	24	20	18	1.95
1886038--1886094	28	2.0	28	93	0	96	36	24	19	19	1.94
1890296--1890337	18	2.3	18	79	0	57	28	14	14	42	1.84
1894909--1894983	24	3.1	24	88	0	114	20	28	24	28	1.99
1895428--1895468	20	2.1	19	86	4	55	31	2	4	60	1.30
1896907--1896946	20	2.0	20	100	0	80	25	20	25	30	1.99
1902423--1902464	18	2.3	18	83	0	66	28	14	11	45	1.80
1902589--1902670	41	2.0	41	87	0	119	24	15	18	41	1.89
1909029--1909069	20	2.1	19	86	4	55	31	2	4	60	1.30
1915125--1915195	23	3.1	22	78	8	79	19	16	28	35	1.94
1919715--1919756	16	2.5	17	77	14	52	64	14	2	19	1.39
1923982--1924091	50	2.2	50	80	8	116	15	19	21	43	1.87
1924691--1924745	27	2.0	27	82	6	67	47	3	5	43	1.44
1926907--1926952	15	3.1	15	83	0	65	15	26	15	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1927419--1927455	2	18.5	2	100	0	74	48	0	0	51	1.00
1928353--1928386	17	2.0	17	88	0	50	26	14	14	44	1.84
1932482--1932524	18	2.4	18	92	0	68	20	6	0	72	1.08
1932569--1932645	8	9.9	8	69	8	52	25	3	0	70	1.05
1932593--1932646	18	2.9	18	77	20	58	31	0	0	68	0.90
1934992--1935034	18	2.4	18	100	0	86	41	0	13	44	1.44
1945374--1945434	18	3.3	18	78	17	70	24	19	18	37	1.94
1946336--1946369	2	17.0	2	100	0	68	50	0	0	50	1.00
1947776--1947825	20	2.4	22	86	10	77	24	4	0	72	1.02
1947806--1947841	15	2.4	14	86	13	54	25	2	2	69	1.15

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73