genome.fa.s761.2.7.7.80.10.50.1000.7.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  7  of  23  ( 2686 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)
1667118--1667149	15	2.1	15	94	0	55	46	9	18	25	1.79
1670988--1671043	23	2.3	26	81	9	73	55	0	3	41	1.17
1672672--1672732	3	21.0	3	81	6	72	60	0	1	37	1.07
1672672--1672730	12	4.8	12	85	4	82	59	0	1	38	1.08
1679153--1679737	185	3.0	196	87	6	917	40	16	10	32	1.84
1687925--1687950	4	6.5	4	100	0	52	23	0	23	53	1.46
1690220--1690271	20	2.6	20	96	0	95	38	26	13	21	1.90
1690327--1690520	20	9.6	20	76	8	76	35	25	19	19	1.95
1690323--1690520	40	5.0	39	81	4	200	35	26	19	19	1.95
1690327--1690519	60	3.2	60	83	0	251	35	25	19	19	1.95
1691529--1691553	12	2.1	12	100	0	50	0	28	0	72	0.86
1691728--1691774	24	2.0	24	87	8	69	38	21	14	25	1.92
1692457--1692845	20	19.5	20	86	5	457	19	18	26	35	1.95
1702904--1702945	16	2.7	15	76	23	50	40	2	0	57	1.12
1702904--1702946	17	2.7	16	80	20	54	39	2	0	58	1.11
1703880--1703981	44	2.3	46	84	3	127	38	24	18	18	1.93
1704275--1704360	28	3.1	28	100	0	172	43	10	13	32	1.79
1704667--1704727	23	2.7	23	76	0	68	21	24	24	29	1.99
1709350--1709409	30	2.0	28	81	15	68	66	5	8	20	1.37
1709367--1709435	30	2.3	29	83	11	79	66	4	7	21	1.34
1709566--1709603	19	2.0	19	94	0	67	28	0	28	42	1.56
1709593--1709801	114	1.8	113	86	5	305	44	14	17	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711001--1711782	139	5.6	139	85	0	963	24	17	28	28	1.97
1711907--1712280	67	5.6	67	85	2	452	37	13	17	30	1.89
1714308--1714482	44	4.0	44	89	0	253	32	21	15	31	1.94
1714622--1714686	31	2.1	30	97	0	103	38	6	6	49	1.53
1722858--1722904	16	2.9	15	87	12	67	14	0	21	63	1.30
1722899--1722935	14	2.4	16	86	8	51	27	0	18	54	1.44
1723291--1723328	18	2.1	18	90	0	58	34	7	5	52	1.53
1725056--1725553	4	125.8	4	96	2	925	49	24	0	25	1.55
1726176--1726222	21	2.2	21	77	7	51	36	4	4	55	1.39
1727926--1728143	111	2.0	111	91	0	355	22	27	17	31	1.97
1728625--1728657	2	16.5	2	100	0	66	48	0	0	51	1.00
1729373--1729665	42	7.0	43	79	10	250	26	17	5	50	1.68
1729376--1729661	83	3.4	83	76	10	226	26	17	5	50	1.67
1730335--1730415	24	3.4	24	68	13	76	56	0	2	40	1.12
1730325--1730434	48	2.3	48	96	3	204	58	0	1	40	1.09
1732281--1732345	31	2.1	31	97	0	121	18	6	21	53	1.66
1738497--1738981	180	2.7	178	85	5	627	39	8	11	40	1.73
1739893--1739968	21	3.6	21	76	13	84	19	21	25	34	1.96
1739902--1739989	42	2.1	42	95	0	158	22	20	21	35	1.96
1739908--1740007	21	4.7	21	74	12	96	20	21	20	39	1.93
1740862--1740899	17	2.3	16	90	4	58	39	0	2	57	1.12
1740844--1740897	13	4.2	13	77	15	58	40	1	1	55	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1743159--1743203	23	2.0	23	81	0	54	53	8	4	33	1.52
1757175--1757213	21	1.9	21	89	5	62	30	15	17	35	1.91
1759339--1759452	49	2.3	49	89	1	167	28	24	15	30	1.96
1759713--1760297	55	10.7	55	90	0	863	33	17	12	35	1.88
1760650--1760703	19	2.7	19	82	8	63	29	11	16	42	1.83
1768811--1768867	23	2.5	23	94	0	96	50	5	12	31	1.62
1769247--1769334	31	2.8	31	80	1	86	46	9	4	39	1.56
1770014--1770045	16	2.0	16	93	0	55	34	9	18	37	1.83
1776973--1777571	297	2.0	297	99	0	1189	31	15	17	35	1.91
1782543--1782680	51	2.8	51	86	7	171	16	7	22	52	1.69
1782684--1782733	26	1.9	26	91	0	82	50	8	6	36	1.57
1782715--1782978	131	2.0	132	93	0	449	34	11	15	39	1.83
1784604--1784635	16	2.0	16	100	0	64	31	25	18	25	1.98
1792582--1792644	21	3.0	21	74	6	65	25	17	19	38	1.93
1794852--1794973	37	3.3	37	88	4	174	54	22	3	18	1.58
1794852--1794986	12	10.9	12	72	5	99	54	22	2	20	1.57
1796182--1796222	21	2.0	21	90	0	64	36	26	17	19	1.94
1796193--1796299	21	5.0	21	70	13	65	35	23	14	27	1.93
1797229--1797298	35	2.0	35	86	10	99	25	28	15	30	1.96
1801260--1801358	23	4.3	23	78	11	94	12	5	19	63	1.46
1801251--1801335	33	2.6	33	81	1	91	11	4	21	62	1.47
1803038--1803076	20	2.0	20	89	0	60	38	7	5	48	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1808513--1808556	21	2.1	21	100	0	88	40	18	9	31	1.81
1810725--1810838	60	1.9	60	85	3	158	50	0	11	37	1.45
1821973--1822002	15	2.0	15	93	0	51	26	16	13	43	1.85
1830981--1831031	22	2.3	22	80	6	59	58	35	0	5	1.22
1834578--1834605	4	7.0	4	100	0	56	50	25	0	25	1.50
1838489--1838587	33	3.3	29	70	18	71	49	2	0	48	1.12
1840227--1840326	7	14.4	7	76	2	94	7	49	26	18	1.72
1840251--1840326	21	3.7	21	91	3	127	6	48	26	18	1.72
1840233--1840326	41	2.3	42	86	3	145	7	48	26	17	1.73
1849334--1849739	201	2.0	201	99	0	796	27	18	25	28	1.98
1851112--1851143	16	2.0	16	93	0	55	34	37	3	25	1.72
1852412--1852471	27	2.3	26	94	5	104	31	13	16	38	1.87
1854129--1854216	44	2.0	44	100	0	176	25	31	13	29	1.94
1856199--1856284	25	3.4	25	93	6	154	30	13	16	39	1.87
1858324--1858372	25	2.0	25	100	0	98	16	18	16	48	1.81
1860899--1861005	54	2.0	55	90	1	171	34	13	9	42	1.76
1871919--1872011	46	2.0	47	97	2	179	19	15	26	38	1.91
1886778--1886865	23	3.8	23	80	10	99	35	25	23	15	1.95
1886996--1887077	15	5.5	15	85	0	101	37	19	4	37	1.73
1888724--1888786	23	2.8	22	86	11	83	36	22	22	19	1.95
1888929--1889010	15	5.5	15	82	0	92	37	18	4	39	1.72
1888929--1889014	30	2.9	30	89	0	118	38	17	4	39	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1889374--1889418	20	2.2	20	84	8	54	24	24	11	40	1.87
1895490--1895561	23	3.0	24	75	2	74	31	25	23	19	1.98
1895692--1895758	15	4.5	15	80	0	71	40	16	4	38	1.69
1895704--1895762	30	2.0	30	86	0	82	44	15	1	38	1.56
1900246--1900280	17	2.1	17	100	0	70	37	0	28	34	1.58
1900754--1902054	653	2.0	645	92	1	2154	40	16	20	22	1.91
1902608--1902665	26	2.2	26	100	0	116	29	12	17	41	1.85
1907460--1907543	23	3.7	23	91	0	123	27	26	26	20	1.99
1934108--1934161	25	2.2	25	100	0	108	57	11	14	16	1.65
1936102--1936135	18	1.9	18	88	5	52	55	5	5	32	1.48
1936138--1936196	30	2.0	29	83	9	75	49	8	16	25	1.74
1936579--1936610	5	6.4	5	100	0	64	56	21	0	21	1.43
1945408--1945450	17	2.5	17	80	0	50	39	6	16	37	1.75
1950215--1950279	10	6.3	10	78	7	67	1	13	3	81	0.88
1950202--1950270	31	2.2	31	84	5	86	4	13	4	78	1.05
1956781--1956825	16	2.9	15	83	9	54	6	4	4	84	0.87
1958040--1958072	17	1.9	17	100	0	66	42	6	15	36	1.71
1965775--1965952	90	2.0	90	94	2	313	38	10	6	44	1.64
1972613--1972790	90	2.0	90	94	0	311	37	11	6	44	1.68
1995527--1995616	30	3.0	30	82	4	110	30	17	23	28	1.97
1999040--1999108	31	2.2	29	78	12	75	43	13	17	26	1.85
2002007--2002068	30	2.1	30	84	0	79	33	20	17	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2002854--2002948	23	4.3	22	77	11	70	31	26	20	22	1.98
2002883--2002949	23	2.9	23	86	0	89	28	25	25	20	1.99
2004499--2004640	31	4.6	31	92	0	239	38	21	19	21	1.94
2009711--2009751	6	6.7	6	86	5	55	82	0	7	9	0.83
2009711--2009757	13	3.9	12	81	8	51	82	0	8	8	0.83
2009714--2009750	19	1.9	19	100	0	74	81	0	8	10	0.89
2010279--2010320	22	1.9	22	85	0	57	21	4	33	40	1.74
2018036--2018132	23	4.3	22	85	5	124	28	24	20	25	1.99
2018036--2018132	46	2.2	44	88	7	142	28	24	20	25	1.99
2018774--2018824	20	2.6	20	90	3	77	27	27	11	33	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23