genome.fa.s283.2.7.7.80.10.50.1000.10.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: Scaffold283
Parameters: 2 7 7 80 10 50 1000
Length:  2945114

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

This is table  10  of  15  ( 1700 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)
1726143--1726171	2	14.5	2	100	0	58	51	0	0	48	1.00
1726683--1726720	2	19.0	2	100	0	76	50	0	0	50	1.00
1726811--1726840	3	10.0	3	100	0	60	33	0	0	66	0.92
1727043--1727100	13	4.6	14	72	27	51	43	1	0	55	1.10
1727044--1727103	11	5.2	12	78	13	63	45	1	0	53	1.10
1731709--1731765	20	2.8	19	75	17	53	52	1	8	36	1.43
1741297--1741357	19	3.1	19	77	13	61	40	0	1	57	1.08
1741294--1741359	20	3.3	20	82	4	80	42	0	1	56	1.08
1741284--1741367	39	2.1	41	80	10	95	42	1	1	54	1.15
1741741--1741767	14	1.9	14	100	0	54	44	0	0	55	0.99
1742005--1742100	45	2.1	44	78	14	99	61	0	3	35	1.12
1744445--1744478	3	11.3	3	100	0	68	32	0	0	67	0.91
1744789--1744833	18	2.5	18	77	0	54	33	0	0	66	0.92
1746028--1746096	27	2.6	27	75	11	72	49	0	0	50	1.00
1746574--1746611	19	2.0	19	85	10	51	31	0	0	68	0.90
1746566--1746655	28	3.0	29	72	26	80	40	1	0	58	1.05
1746578--1746624	15	2.8	17	75	18	53	36	0	0	63	0.94
1749319--1749365	17	2.9	16	75	6	58	61	0	0	38	0.96
1749297--1749365	33	2.0	34	86	10	97	59	0	0	40	0.97
1749309--1749367	8	7.2	8	75	16	50	59	0	0	40	0.97
1749414--1749451	20	1.9	20	88	0	58	57	0	0	42	0.98
1749414--1749478	28	2.5	23	81	18	67	56	0	1	41	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749433--1749478	13	3.4	13	83	16	58	56	0	2	41	1.11
1749433--1749475	15	3.0	14	87	12	61	58	0	2	39	1.11
1749972--1750001	2	15.0	2	100	0	60	50	0	0	50	1.00
1751619--1751661	23	2.0	22	86	13	63	46	0	0	53	1.00
1752632--1752814	15	11.2	15	66	17	71	1	30	13	55	1.45
1752636--1752693	18	3.1	18	73	22	64	1	31	12	55	1.47
1752636--1752696	21	3.0	21	74	6	65	1	31	11	55	1.45
1752636--1752749	36	3.1	35	81	12	108	1	29	12	56	1.46
1752675--1752823	30	4.8	30	77	11	129	0	30	12	55	1.42
1752701--1752740	21	1.9	21	84	0	53	0	32	12	55	1.38
1752687--1752744	18	3.2	18	71	9	55	1	31	12	55	1.47
1752722--1752823	45	2.3	45	82	0	123	0	31	12	55	1.37
1752729--1752823	15	6.3	15	71	4	75	0	30	13	55	1.38
1756123--1756162	12	3.2	12	79	6	53	32	0	0	67	0.91
1756398--1756440	16	2.7	16	72	13	52	32	0	0	67	0.91
1756928--1756974	15	3.3	14	81	18	53	53	0	0	46	1.00
1756923--1756984	15	4.2	15	75	21	51	54	1	0	43	1.09
1757096--1757142	18	2.7	18	80	3	60	74	0	0	25	0.82
1757363--1757426	21	2.8	24	77	13	66	51	3	0	45	1.17
1766676--1766718	12	3.5	12	77	3	50	39	0	0	60	0.97
1766692--1766741	17	3.1	17	72	16	52	42	0	0	58	0.98
1774490--1774666	88	2.0	88	93	0	300	24	20	18	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1783099--1783127	2	14.5	2	100	0	58	0	51	0	48	1.00
1784066--1784112	2	23.5	2	100	0	94	48	0	0	51	1.00
1784153--1784183	2	15.5	2	93	0	53	51	0	0	48	1.00
1793242--1793284	17	2.5	17	92	0	68	34	13	4	46	1.65
1793388--1793427	14	2.9	14	82	14	55	47	0	2	50	1.14
1793387--1793467	28	2.9	27	75	21	78	51	0	1	46	1.08
1793425--1793484	15	3.9	16	70	18	56	56	0	1	41	1.09
1793927--1793977	17	2.9	17	75	13	50	60	0	0	39	0.97
1794516--1794612	37	2.7	36	71	17	85	51	0	0	48	1.00
1795515--1795577	27	2.3	27	83	5	74	63	0	6	30	1.19
1795529--1795572	18	2.4	19	84	3	63	65	0	2	31	1.05
1795529--1795587	9	6.4	9	75	15	50	66	0	1	32	1.02
1795529--1795587	18	3.2	18	78	7	57	66	0	1	32	1.02
1795829--1795858	13	2.4	13	94	5	53	53	0	0	46	1.00
1795829--1795858	6	4.8	6	92	8	51	53	0	0	46	1.00
1795921--1795959	20	2.0	20	84	0	51	53	0	0	46	1.00
1796764--1796891	62	2.1	62	95	0	229	38	4	9	47	1.57
1797211--1797267	28	2.0	29	83	10	73	42	1	3	52	1.28
1797449--1797481	12	2.7	12	95	4	57	27	3	0	69	1.03
1797541--1797579	16	2.5	16	87	4	53	46	0	0	53	1.00
1797683--1797736	8	7.1	8	79	10	51	38	0	1	59	1.08
1803574--1803619	13	3.2	15	76	17	53	36	2	0	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1803662--1803705	23	2.0	23	86	4	63	38	0	0	61	0.96
1803732--1803784	19	2.8	19	71	5	54	52	1	0	45	1.11
1804309--1804348	21	1.9	21	85	10	55	45	2	0	52	1.14
1805554--1805589	2	18.0	2	94	0	63	47	0	2	50	1.15
1807568--1807616	23	2.2	22	85	3	62	53	0	0	46	1.00
1816176--1816217	14	3.1	13	83	12	57	38	0	0	61	0.96
1820378--1820402	11	2.3	11	100	0	50	16	8	8	68	1.38
1820416--1820451	17	2.1	17	89	0	54	44	2	8	44	1.48
1820505--1820565	25	2.5	25	97	2	115	26	11	24	37	1.89
1821380--1821429	24	2.1	24	85	3	66	50	0	0	50	1.00
1821949--1822000	18	3.2	16	77	17	54	53	0	1	44	1.11
1821924--1822005	32	2.5	31	82	5	83	53	0	2	43	1.13
1821955--1822036	35	2.4	34	80	11	89	52	0	3	43	1.18
1823216--1823240	2	12.5	2	100	0	50	48	0	0	52	1.00
1826034--1826108	32	2.3	32	82	11	91	38	1	0	60	1.06
1826049--1826097	25	2.0	25	84	8	64	36	2	0	61	1.08
1827496--1827560	21	2.7	25	70	22	66	36	0	0	63	0.95
1834257--1834290	2	17.0	2	100	0	68	50	0	50	0	1.00
1836760--1836814	24	2.3	23	78	12	56	16	9	9	65	1.46
1844878--1845261	192	2.0	192	98	0	750	33	18	19	28	1.96
1852717--1852825	55	2.0	55	100	0	218	24	16	22	36	1.94
1862766--1862849	40	2.1	40	82	4	98	33	9	8	48	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1864850--1864895	18	2.9	15	79	17	56	23	47	2	26	1.63
1864859--1864925	18	3.7	18	87	0	98	25	44	0	29	1.54
1865744--1865768	2	12.5	2	100	0	50	48	0	0	52	1.00
1867914--1867949	17	2.1	18	89	5	56	61	0	0	38	0.96
1867999--1868047	14	3.5	14	72	10	55	16	18	36	28	1.92
1868001--1868055	28	2.0	28	100	0	110	21	20	32	25	1.97
1870094--1870127	17	2.1	17	88	5	52	50	0	0	50	1.00
1870239--1870270	8	4.1	8	92	8	57	50	0	0	50	1.00
1870239--1870269	15	2.1	15	100	0	62	51	0	0	48	1.00
1870354--1870393	16	2.5	16	87	0	53	60	0	0	40	0.97
1882209--1882240	2	16.0	2	100	0	64	50	0	0	50	1.00
1883426--1883474	18	2.5	19	80	12	55	71	6	0	22	1.08
1884018--1884072	19	2.9	19	73	10	58	41	0	0	58	0.98
1884047--1884087	14	2.9	15	83	16	52	46	0	0	53	1.00
1884040--1884086	21	2.2	21	81	7	51	46	0	0	53	1.00
1885294--1885318	12	2.1	12	100	0	50	56	0	36	8	1.29
1888086--1888136	25	2.0	25	100	0	102	25	23	3	47	1.69
1897177--1897201	4	6.2	4	100	0	50	48	0	0	52	1.00
1897534--1897575	21	2.0	21	86	9	59	59	0	0	40	0.97
1898154--1898208	15	3.6	15	73	20	51	45	1	1	50	1.22
1898323--1898389	28	2.4	28	84	2	80	50	1	2	44	1.26
1901043--1901088	11	4.1	12	81	10	53	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1902458--1902496	20	2.0	20	94	0	69	53	0	0	46	1.00
1902458--1902531	25	2.6	28	74	19	73	55	0	0	44	0.99
1902511--1902559	19	2.6	19	87	6	64	63	2	0	34	1.06
1904376--1904406	16	2.0	16	93	6	55	29	0	0	70	0.87
1905308--1905370	26	2.5	23	75	25	56	47	1	1	49	1.20
1907839--1907877	15	2.6	15	88	8	53	25	5	0	69	1.09
1909075--1909107	2	16.5	2	100	0	66	51	0	48	0	1.00
1909419--1909445	2	13.5	2	100	0	54	51	0	48	0	1.00
1910093--1910137	21	2.2	20	92	7	74	57	0	0	42	0.98
1910063--1910132	11	6.4	11	69	12	54	51	0	0	48	1.00

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