genome.fa.s33.2.7.7.80.10.50.1000.12.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: Scaffold33
Parameters: 2 7 7 80 10 50 1000
Length:  2032796

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

This is table  12  of  13  ( 1521 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)
1805648--1805849	95	2.1	94	90	0	314	36	15	16	32	1.90
1805795--1805891	42	2.3	42	92	0	158	38	16	16	28	1.91
1805700--1805986	137	2.1	137	96	0	520	37	14	17	30	1.89
1805837--1806019	95	1.9	95	94	2	323	37	13	18	31	1.89
1806748--1806783	11	3.4	11	88	7	56	47	30	0	22	1.52
1809801--1809849	21	2.3	21	86	10	64	34	12	22	30	1.91
1811498--1811960	80	5.9	79	75	6	355	40	9	19	30	1.84
1811580--1811943	159	2.3	159	79	6	371	42	8	17	31	1.80
1811598--1811943	79	4.4	79	77	8	294	43	8	17	31	1.79
1814021--1814155	53	2.6	51	89	2	198	40	10	18	30	1.84
1814145--1814198	20	2.7	20	76	2	54	33	9	14	42	1.78
1814238--1814292	20	2.7	21	80	5	67	32	16	10	40	1.83
1814238--1814311	21	3.6	20	83	7	78	32	18	10	37	1.86
1814985--1815108	31	3.9	31	82	7	160	32	25	11	31	1.91
1815015--1815110	34	2.9	34	84	4	117	31	26	9	33	1.88
1815684--1815776	19	5.5	19	70	27	93	47	11	16	24	1.80
1815701--1815760	13	5.2	13	74	25	71	45	13	15	26	1.83
1815684--1815795	32	3.4	32	93	5	179	46	12	16	25	1.81
1816377--1816421	22	2.0	22	86	0	63	4	15	17	62	1.49
1817079--1817120	22	2.0	21	90	9	68	42	9	7	40	1.65
1817721--1817775	22	2.6	21	80	11	67	47	0	1	50	1.11
1817738--1817781	21	2.0	22	82	4	54	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1818429--1818486	20	2.9	20	76	7	64	44	13	8	32	1.75
1819515--1819585	27	2.9	27	76	23	84	47	0	1	50	1.09
1819637--1819670	15	2.4	14	90	5	50	47	0	0	52	1.00
1820135--1820178	23	2.0	22	90	4	70	61	0	0	38	0.96
1821014--1821061	14	3.4	14	82	8	53	39	0	0	60	0.97
1821017--1821083	27	2.5	27	78	9	66	46	0	0	53	1.00
1822260--1822306	16	2.9	16	81	9	51	44	0	2	53	1.12
1822277--1822307	16	1.9	16	93	0	53	45	0	3	51	1.17
1822343--1822381	18	2.1	19	90	4	62	56	2	0	41	1.13
1822932--1822986	19	2.9	19	82	15	69	38	0	0	61	0.96
1822929--1822990	10	5.8	11	71	19	51	37	0	0	62	0.95
1822952--1823024	37	2.0	37	87	10	107	34	0	0	65	0.93
1822971--1823018	16	3.4	16	68	31	54	35	0	0	64	0.94
1822960--1823020	26	2.3	26	94	2	104	36	0	0	63	0.94
1822962--1823024	11	5.2	12	80	17	69	33	0	0	66	0.92
1824266--1824308	20	2.2	20	100	0	86	51	0	9	39	1.34
1825078--1825148	30	2.4	31	78	4	74	54	4	4	36	1.39
1825176--1825241	33	2.0	33	88	5	98	43	1	4	50	1.32
1825887--1825936	22	2.3	22	82	6	57	34	4	0	62	1.14
1825998--1826044	18	2.5	19	80	16	53	63	2	0	34	1.06
1827158--1827211	21	2.5	22	80	14	60	38	1	0	59	1.08
1827195--1827234	21	1.9	21	85	10	55	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1827511--1827551	21	2.0	21	90	0	64	41	2	9	46	1.50
1827799--1827921	37	3.2	40	76	15	116	44	2	0	52	1.14
1828221--1828269	17	2.9	17	75	9	55	59	0	4	36	1.17
1828191--1828317	34	3.5	34	71	12	101	53	0	3	42	1.22
1828278--1828326	24	2.0	25	88	4	73	48	4	2	44	1.33
1829354--1829397	23	1.9	23	90	9	72	56	0	0	43	0.99
1829476--1829524	5	9.4	5	81	16	55	55	4	2	38	1.31
1829611--1829659	21	2.4	20	80	12	55	34	2	2	61	1.19
1829677--1829725	17	2.9	17	78	6	55	40	0	0	59	0.98
1829670--1829713	22	2.0	22	86	8	63	40	0	0	59	0.98
1830109--1830158	2	26.0	2	76	8	50	2	48	0	50	1.12
1830109--1830153	19	2.4	19	88	7	65	2	48	0	48	1.13
1830113--1830152	15	2.7	15	88	0	53	2	50	0	47	1.14
1837522--1837578	21	2.7	21	83	5	62	36	3	26	33	1.74
1837543--1837586	21	2.1	21	82	0	52	36	4	20	38	1.73
1840875--1840948	20	3.7	20	77	10	87	33	14	14	36	1.88
1851528--1851588	1	61.0	1	76	0	59	88	4	0	6	0.63
1852902--1852980	28	2.9	28	82	1	97	27	29	18	24	1.98
1853161--1853302	32	4.5	32	78	3	135	33	32	16	17	1.92
1853161--1853326	63	2.6	61	74	7	152	31	31	16	19	1.95
1853324--1853864	52	10.4	52	70	10	327	25	25	15	33	1.95
1853602--1853725	49	2.5	49	81	0	140	25	24	17	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1853325--1853815	263	1.8	267	86	3	722	25	24	16	34	1.95
1860750--1860870	52	2.3	52	92	0	206	28	16	18	36	1.92
1860750--1860890	52	2.7	52	84	4	178	29	16	19	34	1.93
1860879--1860903	13	1.9	13	100	0	50	36	16	16	32	1.90
1860949--1861011	33	1.9	33	86	0	90	42	14	9	33	1.78
1861627--1861680	25	2.1	27	89	6	85	44	0	0	55	0.99
1861738--1861775	20	2.0	19	85	10	51	34	0	5	60	1.19
1862837--1862870	2	17.0	2	100	0	68	50	0	0	50	1.00
1863746--1863774	2	14.5	2	100	0	58	51	0	0	48	1.00
1863929--1863974	20	2.2	20	81	11	58	56	2	2	39	1.24
1869044--1869081	20	1.9	20	100	0	76	42	10	23	23	1.85
1874619--1874667	19	2.4	19	80	13	53	30	20	4	44	1.70
1882849--1883468	42	14.7	42	79	6	529	12	29	18	38	1.88
1882849--1883468	127	4.9	124	76	8	484	12	29	18	38	1.88
1882849--1883454	210	2.9	209	79	6	598	12	29	18	38	1.88
1884221--1884261	20	2.0	20	100	0	82	39	9	26	24	1.86
1885319--1885359	16	2.6	16	84	7	57	78	2	0	19	0.87
1889938--1890019	33	2.5	31	85	12	112	31	13	9	45	1.76
1890847--1890938	45	2.0	46	82	12	111	44	0	0	55	0.99
1890846--1890900	30	1.9	29	82	10	69	43	0	0	56	0.99
1890882--1890945	31	2.0	33	82	11	80	50	0	0	50	1.00
1890882--1890958	33	2.4	32	79	10	86	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1890943--1890991	5	9.6	5	89	10	73	22	0	0	77	0.77
1891206--1891293	20	4.6	20	70	21	64	59	0	0	40	0.98
1891218--1891268	14	3.5	14	73	19	50	56	0	0	43	0.99
1891232--1891300	18	3.8	18	75	12	70	57	0	0	42	0.98
1891207--1891270	30	2.0	32	85	8	87	60	0	0	39	0.97
1891232--1891303	20	3.9	19	72	17	62	55	0	0	44	0.99
1891325--1891358	14	2.5	14	90	4	52	44	0	0	55	0.99
1892539--1892583	2	23.0	2	84	4	56	44	4	0	51	1.21
1893960--1893984	13	1.9	13	100	0	50	60	0	0	40	0.97
1900642--1900689	24	2.0	24	83	0	60	45	0	0	54	0.99
1901356--1901407	17	3.1	17	83	10	70	44	0	1	53	1.11
1901493--1901549	17	3.3	17	81	13	80	63	0	0	36	0.95
1901496--1901556	18	3.3	19	71	15	65	60	0	1	37	1.07
1901470--1901558	17	5.1	16	75	12	61	57	1	2	39	1.19
1902823--1902862	21	1.9	21	85	10	55	62	0	0	37	0.95
1902825--1902890	19	3.4	19	74	21	57	60	0	0	39	0.97
1903429--1903499	29	2.4	30	73	23	69	32	2	2	61	1.24
1903412--1903513	20	5.2	20	73	16	70	31	3	1	62	1.24
1903418--1903513	41	2.4	40	82	6	106	30	4	2	63	1.24
1911347--1911404	16	3.6	16	72	11	55	55	13	1	29	1.49
1911425--1911464	16	2.6	15	88	7	62	45	30	0	25	1.54
1912201--1912294	49	2.0	49	84	14	126	38	6	1	54	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1916100--1916135	2	18.0	2	100	0	72	50	0	0	50	1.00
1916514--1916554	21	2.0	20	86	13	57	58	0	0	41	0.98
1920624--1920669	24	1.9	24	86	0	65	21	13	19	45	1.84
1921523--1921586	33	1.9	34	87	3	94	39	1	9	50	1.44
1922296--1922344	23	2.1	24	84	3	64	67	0	10	22	1.20
1922623--1922692	27	2.4	31	86	11	94	71	1	0	27	0.94
1922623--1922686	32	2.0	32	84	9	85	70	1	0	28	0.97
1924967--1925095	35	3.6	35	74	15	129	42	3	0	54	1.16
1925076--1925135	13	4.3	13	71	22	50	36	0	1	61	1.06
1925194--1925245	21	2.5	21	77	0	68	38	7	0	53	1.30

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