genome.fa.s35.2.7.7.80.10.50.1000.11.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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  11  of  30  ( 3549 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)
1783425--1786682	159	20.9	156	69	12	1022	30	18	14	36	1.90
1783844--1788012	317	13.4	309	69	13	1317	30	18	14	36	1.90
1788741--1789980	159	7.8	156	72	9	628	30	19	13	37	1.89
1789528--1789805	153	1.8	153	82	4	355	30	19	10	38	1.86
1791858--1791936	29	2.7	29	100	0	158	58	10	13	17	1.63
1792777--1792807	10	3.1	10	90	0	53	22	29	6	41	1.78
1792795--1792850	21	2.6	22	94	5	105	26	25	10	37	1.88
1792785--1792968	53	3.3	54	73	19	164	29	23	9	37	1.86
1792817--1792932	34	3.6	34	72	18	115	28	22	9	39	1.85
1794998--1795158	84	1.9	84	80	9	186	54	3	16	25	1.59
1796671--1796695	13	1.9	13	100	0	50	36	16	16	32	1.90
1798469--1798499	10	3.1	10	90	0	53	22	29	6	41	1.78
1798487--1798542	21	2.6	22	94	5	105	26	25	10	37	1.88
1798477--1798660	53	3.3	54	73	19	164	29	23	9	37	1.86
1798509--1798624	34	3.6	34	72	18	115	28	22	9	39	1.85
1804916--1804965	20	2.5	20	77	6	57	40	22	8	30	1.82
1808064--1808122	29	2.0	29	90	0	91	62	10	10	16	1.53
1810446--1810525	30	2.7	30	92	3	126	42	3	45	8	1.53
1810461--1810500	21	1.9	21	89	0	62	45	2	42	10	1.51
1816762--1816822	9	7.1	9	72	10	56	47	1	39	11	1.50
1816741--1816853	42	2.7	41	86	5	154	45	0	41	12	1.48
1825618--1825697	30	2.7	30	92	3	126	8	45	3	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1825643--1825682	21	1.9	21	89	0	62	10	42	2	45	1.51
1832073--1832120	21	2.3	21	88	0	78	43	4	35	16	1.67
1832412--1832444	13	2.5	14	90	9	52	36	6	15	42	1.71
1832717--1832772	20	2.8	20	83	5	60	28	17	12	41	1.86
1833268--1833404	44	3.1	44	95	0	238	32	10	21	35	1.87
1833975--1834018	21	2.1	21	95	0	79	77	2	13	6	1.07
1833946--1833982	3	12.7	3	94	5	67	70	0	29	0	0.88
1834666--1834760	42	2.3	42	90	0	145	44	1	41	13	1.51
1840746--1840821	12	6.9	11	75	15	52	39	2	48	9	1.49
1840745--1840830	24	3.8	24	72	17	85	41	2	45	10	1.51
1840736--1840854	42	2.8	42	92	0	193	42	2	46	8	1.47
1847459--1847577	42	2.8	42	90	0	184	8	45	2	43	1.47
1847492--1847567	12	6.9	11	75	15	52	9	48	2	39	1.49
1847483--1847568	24	3.8	24	72	17	85	10	45	2	41	1.51
1847474--1847544	18	3.6	18	69	20	52	9	43	2	43	1.52
1864112--1864243	28	4.6	28	79	5	120	25	15	28	29	1.96
1864206--1864265	31	1.9	31	93	0	102	30	20	21	28	1.98
1868924--1869005	28	3.0	28	70	13	71	59	8	19	12	1.58
1869063--1869093	15	2.1	14	94	5	53	0	9	0	90	0.46
1870105--1870426	67	4.9	67	76	12	254	23	18	25	32	1.97
1870178--1870297	36	3.5	35	68	11	104	22	15	26	35	1.93
1870365--1870604	37	6.9	37	74	10	150	24	16	26	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870452--1870523	31	2.3	31	97	0	135	20	22	26	30	1.98
1870694--1870865	55	3.1	55	88	0	236	30	15	24	29	1.95
1875678--1875745	12	5.2	12	70	26	50	11	42	0	45	1.40
1875676--1875754	21	3.8	21	70	12	72	11	40	0	48	1.39
1875650--1875730	30	2.7	30	80	3	92	12	41	0	45	1.41
1877526--1877618	44	2.1	44	95	0	168	29	9	24	36	1.87
1883942--1884137	103	1.9	106	83	7	258	34	10	22	32	1.89
1884405--1884527	66	1.9	65	89	1	192	31	10	23	34	1.89
1884481--1884619	69	2.0	69	88	0	206	41	11	15	31	1.82
1887317--1887850	146	3.7	141	76	11	413	27	15	28	29	1.96
1887407--1887757	73	4.8	73	70	11	222	27	13	28	29	1.94
1890362--1890394	14	2.4	14	94	0	57	6	27	15	51	1.66
1891393--1891485	44	2.1	44	91	0	150	34	10	19	35	1.86
1892033--1892078	19	2.5	19	89	3	76	78	4	10	6	1.08
1892714--1892783	22	3.3	22	68	22	58	48	1	41	8	1.42
1892708--1892757	24	2.1	24	84	0	64	54	0	36	10	1.34
1898113--1898195	42	2.0	42	95	0	148	26	24	18	31	1.97
1901642--1901668	13	2.1	13	100	0	54	29	14	14	40	1.86
1901714--1901743	12	2.4	13	94	5	53	33	13	13	40	1.83
1901698--1901765	32	2.1	32	86	13	95	32	11	16	39	1.84
1905707--1905827	52	2.3	52	97	0	224	28	18	18	34	1.94
1905707--1905847	52	2.7	51	90	4	212	30	17	18	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1905836--1905860	13	1.9	13	100	0	50	36	16	16	32	1.90
1905926--1905950	13	1.9	13	100	0	50	32	16	16	36	1.90
1905904--1905970	33	2.0	33	88	0	98	40	13	11	34	1.81
1906896--1907457	49	11.7	49	83	5	700	30	17	26	25	1.97
1906830--1907457	98	6.4	98	89	3	839	31	17	25	25	1.97
1907457--1907526	33	2.1	35	94	5	126	20	17	37	25	1.94
1907511--1908464	34	28.3	36	82	13	675	32	12	34	20	1.90
1907524--1907596	35	2.1	36	89	5	114	35	10	35	17	1.85
1907700--1908490	34	23.7	33	82	10	717	31	12	35	20	1.91
1907700--1908467	68	11.4	68	84	9	913	31	12	35	20	1.90
1907927--1908497	105	5.6	105	88	6	750	31	12	34	21	1.91
1908056--1908472	140	3.0	137	88	6	590	33	11	34	20	1.89
1908475--1908557	31	2.7	31	98	0	157	22	18	30	28	1.97
1909859--1909913	15	3.7	14	90	9	83	0	0	10	89	0.50
1909858--1909913	1	56.0	1	78	0	58	0	0	10	89	0.49
1916807--1916927	52	2.3	52	97	0	224	28	18	18	34	1.94
1916807--1916947	52	2.7	51	90	4	212	30	17	18	33	1.94
1916936--1916960	13	1.9	13	100	0	50	36	16	16	32	1.90
1917026--1917050	13	1.9	13	100	0	50	32	16	16	36	1.90
1917004--1917070	33	2.0	33	88	0	98	40	13	11	34	1.81
1917403--1917514	20	5.9	19	74	16	81	33	17	9	39	1.83
1917390--1917419	13	2.3	13	100	0	60	36	16	6	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1917374--1917440	33	2.0	33	91	5	109	31	14	11	41	1.83
1917426--1917491	34	1.9	34	93	0	114	33	18	12	36	1.88
1917374--1917511	54	2.6	54	80	5	165	33	16	10	39	1.84
1918629--1918654	13	2.0	13	100	0	52	30	15	15	38	1.88
1919351--1919394	21	2.1	21	83	8	54	25	31	4	38	1.76
1921195--1921220	13	2.0	13	100	0	52	38	15	15	30	1.88
1921413--1921438	8	3.2	8	100	0	52	61	23	0	15	1.33
1923293--1923322	15	2.0	15	93	0	51	13	23	13	50	1.77
1927382--1927407	13	2.0	13	100	0	52	30	15	15	38	1.88
1929732--1929803	28	2.6	27	82	8	83	23	27	22	26	1.99
1929836--1929911	28	2.7	28	80	8	84	23	31	19	25	1.98
1929718--1929959	107	2.3	107	82	2	281	27	24	16	31	1.96
1929897--1930065	51	3.3	51	84	3	205	30	30	10	28	1.91
1929897--1930080	102	1.8	102	80	2	226	30	29	10	29	1.90
1931037--1931072	9	4.0	9	100	0	72	44	22	0	33	1.53
1939966--1940000	10	3.7	9	88	11	52	88	11	0	0	0.51
1939964--1940007	11	3.9	11	82	11	54	88	9	2	0	0.59
1939964--1940006	12	3.6	12	84	6	52	88	9	2	0	0.60
1940986--1941314	55	5.7	61	84	9	372	26	27	18	27	1.98
1941020--1941303	111	2.5	113	87	4	403	27	26	20	26	1.99
1941225--1941397	94	1.8	94	87	2	258	27	29	19	24	1.98
1941319--1941569	55	4.5	55	91	2	369	27	26	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1941082--1941874	262	3.0	258	85	5	987	25	26	19	27	1.99
1941487--1941669	94	1.9	94	87	2	269	25	27	19	27	1.99
1941626--1941839	61	3.5	60	85	3	259	24	23	21	29	1.99
1941610--1941836	122	1.9	122	85	3	314	25	24	20	28	1.99
1942612--1942701	20	4.8	20	74	20	97	26	15	14	43	1.85
1942630--1942659	13	2.3	13	94	0	51	33	16	10	40	1.82
1942612--1942680	33	2.1	33	91	5	113	27	14	14	43	1.84
1942612--1942752	53	2.7	53	86	2	185	30	15	13	40	1.86
1942683--1942713	13	2.4	13	94	0	53	29	19	16	35	1.93
1942663--1942733	33	2.2	33	94	0	124	26	18	15	39	1.90

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