genome.fa.s7999.2.7.7.80.10.50.1000.7.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  7  of  50  ( 5918 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)
1719310--1719385	38	2.0	38	86	0	107	53	1	3	40	1.27
1719846--1719950	37	2.8	37	86	0	147	30	14	15	40	1.87
1720668--1721718	212	5.0	212	89	3	1565	23	18	24	33	1.96
1720668--1721126	106	4.3	106	88	0	650	24	18	23	33	1.97
1721118--1721718	106	5.7	106	94	1	963	22	17	25	34	1.96
1723322--1723397	20	3.9	18	77	17	64	3	13	5	77	1.08
1723345--1723378	18	1.9	18	94	5	61	0	14	5	79	0.91
1723341--1723401	25	2.5	26	79	15	67	1	14	4	78	0.99
1723343--1723403	16	4.0	15	74	18	54	1	14	4	78	0.99
1727518--1727614	36	2.7	35	76	19	92	56	1	6	36	1.31
1728075--1728179	37	2.8	37	86	0	147	30	14	15	40	1.87
1732378--1732432	25	2.2	26	90	3	85	52	14	0	32	1.42
1735666--1735701	18	2.0	18	88	0	54	52	0	2	44	1.15
1739320--1739790	109	4.4	107	81	8	432	21	19	24	33	1.97
1740247--1740350	33	3.1	33	86	6	131	32	10	18	38	1.85
1740480--1740673	99	1.9	102	93	3	340	37	12	18	32	1.88
1740560--1740635	36	2.1	36	87	0	107	40	14	21	23	1.90
1740651--1740715	33	2.0	33	90	0	103	29	9	16	44	1.79
1740704--1740779	36	2.1	37	90	7	120	38	14	22	25	1.92
1741215--1741248	17	2.0	17	94	0	59	44	29	8	17	1.79
1742316--1742370	12	5.0	11	80	14	60	0	12	5	81	0.84
1742320--1742384	11	5.7	11	80	8	60	0	16	3	80	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1742324--1742363	20	1.9	22	90	10	66	0	12	5	82	0.82
1742336--1742383	24	2.0	25	84	12	64	0	18	2	79	0.84
1742320--1742392	36	2.2	32	82	9	83	1	17	4	76	1.01
1745349--1745410	25	2.3	28	76	17	69	69	6	9	14	1.35
1747339--1747380	2	21.0	2	100	0	84	50	0	0	50	1.00
1754929--1754977	24	2.0	24	96	0	89	51	4	14	30	1.61
1757724--1757790	20	2.9	22	72	19	57	38	8	1	50	1.43
1757890--1757933	23	2.0	23	86	4	63	29	4	2	63	1.26
1759148--1759181	17	2.1	16	88	5	50	35	14	17	32	1.91
1759649--1759854	45	4.6	45	89	3	274	42	9	17	30	1.81
1759646--1759884	45	5.3	44	83	9	150	41	8	17	32	1.79
1759649--1759884	90	2.6	90	86	7	277	42	8	17	31	1.79
1759739--1759913	45	3.9	43	80	8	138	41	7	16	34	1.76
1759604--1759904	135	2.2	134	80	4	318	41	9	18	31	1.82
1760221--1760254	10	3.4	10	95	0	59	50	0	11	38	1.39
1765958--1766009	21	2.5	21	100	0	104	28	17	32	21	1.96
1766195--1766229	17	2.1	16	89	5	52	37	14	20	28	1.91
1766684--1766860	45	4.0	45	87	0	248	40	9	20	29	1.84
1766696--1766910	45	4.8	44	85	4	236	40	8	18	32	1.80
1766656--1766890	89	2.6	88	82	6	267	39	9	19	31	1.84
1770997--1771066	16	4.4	16	85	3	97	10	51	1	37	1.44
1771902--1771952	20	2.5	21	81	6	52	31	13	25	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1772031--1772069	19	2.1	19	85	9	53	28	17	25	28	1.98
1771941--1772067	54	2.4	54	89	0	182	33	18	18	29	1.95
1772650--1772697	23	2.1	23	96	3	89	20	20	29	29	1.98
1777048--1777088	2	20.5	2	100	0	82	51	0	0	48	1.00
1778145--1778297	51	3.1	51	81	5	161	19	32	29	18	1.96
1778378--1778418	10	4.1	10	84	12	57	31	29	0	39	1.57
1778435--1778461	14	1.9	14	100	0	54	37	0	3	59	1.15
1786213--1786252	2	20.0	2	100	0	80	50	0	0	50	1.00
1787459--1787499	21	2.0	21	85	9	57	36	14	21	26	1.93
1787782--1787829	18	2.7	18	86	0	69	50	8	6	35	1.58
1787871--1787914	23	1.9	23	95	0	79	47	11	11	29	1.74
1793577--1793619	21	2.0	21	82	8	52	27	18	25	27	1.98
1800976--1801022	10	4.6	10	86	5	58	85	2	8	4	0.81
1800964--1801040	13	5.8	12	77	17	73	84	1	11	2	0.79
1800965--1801034	6	11.8	6	74	19	58	84	1	11	2	0.80
1803930--1804178	43	5.8	43	90	1	376	25	16	30	27	1.96
1804219--1804326	42	2.6	42	78	12	125	25	21	23	30	1.99
1810552--1810611	3	19.7	3	76	21	54	61	0	0	38	0.96
1810552--1810611	9	6.5	10	80	16	76	61	0	0	38	0.96
1811727--1811777	20	2.5	21	84	12	70	27	19	17	35	1.94
1811831--1811897	21	3.2	21	77	8	73	32	16	14	35	1.90
1816900--1816924	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817369--1817407	21	1.9	19	85	10	51	58	2	2	35	1.25
1822685--1822729	17	2.6	18	85	3	56	71	4	0	24	1.05
1827763--1827927	41	4.0	41	83	5	190	29	10	23	36	1.89
1830839--1830870	10	3.2	10	95	0	55	40	9	25	25	1.85
1832468--1832492	13	1.9	13	100	0	50	52	0	0	48	1.00
1835789--1835847	31	1.9	30	83	10	75	37	20	25	16	1.93
1837630--1837688	19	3.1	19	90	0	64	33	11	1	52	1.48
1837644--1837688	19	2.4	19	100	0	90	35	11	0	53	1.37
1838149--1838207	2	29.5	2	77	13	59	49	6	0	44	1.29
1838149--1838207	21	2.9	21	80	12	61	49	6	0	44	1.29
1842668--1842736	36	1.9	36	90	0	111	42	17	11	28	1.84
1843182--1843271	43	2.1	43	89	4	137	32	8	24	34	1.86
1849795--1849964	77	2.1	82	82	8	208	36	30	11	22	1.89
1849871--1850424	127	4.2	135	84	8	668	35	24	14	24	1.93
1857076--1857118	22	2.0	22	85	0	59	37	4	13	44	1.65
1858585--1858624	22	1.9	21	85	10	55	25	10	22	42	1.84
1867839--1867993	43	3.6	43	70	12	136	41	16	20	21	1.90
1867799--1868117	89	3.7	88	82	7	356	39	14	21	23	1.91
1868476--1868500	13	1.9	13	100	0	50	48	4	0	48	1.20
1871542--1871600	31	1.9	31	92	0	100	40	6	8	44	1.61
1872920--1873090	30	5.9	29	75	13	174	46	20	4	28	1.71
1872950--1873047	27	3.5	27	74	8	97	45	19	6	28	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1872920--1873073	57	2.7	57	92	0	263	46	21	5	27	1.72
1874147--1874261	22	5.4	22	90	4	182	56	23	2	17	1.53
1874235--1874301	32	2.1	32	86	5	91	56	19	1	22	1.50
1874618--1874675	30	2.0	30	86	3	82	25	17	43	13	1.86
1879499--1879555	29	2.0	29	82	6	71	33	10	29	26	1.90
1880029--1880074	15	3.0	15	82	17	51	36	2	0	60	1.09
1881085--1881207	61	2.0	61	84	7	162	39	12	9	39	1.76
1888611--1888671	32	1.9	32	93	0	104	37	22	6	32	1.80
1889003--1889052	21	2.3	22	86	3	66	78	6	2	14	1.03
1894645--1894895	140	1.8	141	85	6	359	28	15	14	41	1.86
1895803--1895833	16	2.0	15	93	6	53	0	22	6	70	1.09
1897108--1897155	24	2.0	24	83	4	60	52	16	6	25	1.67
1901341--1901409	30	2.3	29	90	2	111	46	8	1	43	1.43
1901873--1901945	15	4.9	15	77	15	80	42	6	17	32	1.76
1901873--1901945	30	2.5	30	90	2	121	42	6	17	32	1.76
1902102--1902271	88	1.9	86	81	9	200	45	0	4	50	1.23
1902331--1902375	23	2.0	22	82	4	54	55	2	0	42	1.12
1902329--1902439	52	2.1	52	80	12	122	51	0	0	46	1.13
1902361--1902441	23	3.5	22	75	9	72	48	1	1	49	1.17
1902649--1902764	42	2.8	41	88	2	169	50	18	13	16	1.77
1902790--1902838	24	2.0	24	96	0	89	40	20	10	28	1.85
1903117--1903150	18	1.9	18	88	5	52	26	29	26	17	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1903369--1903399	16	1.9	16	100	0	62	51	19	9	19	1.74
1903453--1903480	14	2.0	14	100	0	56	42	0	7	50	1.30
1906014--1906061	24	2.0	24	100	0	96	16	41	12	29	1.85
1911263--1911369	27	4.0	27	67	29	75	49	0	5	44	1.25
1912237--1912289	21	2.5	21	93	0	88	28	28	22	20	1.99
1912485--1912539	13	4.2	13	75	13	58	49	12	3	34	1.59
1912525--1912623	33	3.0	33	91	1	155	45	13	7	34	1.70
1914938--1914990	23	2.2	24	90	3	81	28	18	18	33	1.95
1916585--1916623	13	3.0	13	80	0	51	74	0	7	17	1.05
1916620--1916900	9	35.1	8	69	22	59	76	1	7	14	1.05

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