genome.fa.s12.2.7.7.80.10.50.1000.9.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: Scaffold12
Parameters: 2 7 7 80 10 50 1000
Length:  2382857

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

This is table  9  of  12  ( 1413 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)
1761417--1761456	7	5.9	7	85	5	55	12	0	2	85	0.71
1761417--1761455	13	2.9	13	85	7	51	12	0	2	84	0.72
1766967--1767013	22	2.1	22	100	0	94	29	8	21	40	1.83
1769119--1769243	42	3.0	41	87	12	166	48	0	38	13	1.43
1779634--1779681	20	2.4	21	82	6	55	29	10	2	58	1.43
1780173--1780218	13	3.8	12	85	8	67	82	0	17	0	0.67
1780173--1780225	13	3.8	13	81	18	63	79	0	18	1	0.83
1780171--1780218	24	2.0	24	92	4	80	81	0	18	0	0.70
1781144--1781457	142	2.2	142	84	4	400	35	10	10	44	1.73
1784879--1784920	21	2.0	21	95	0	75	38	21	14	26	1.91
1784880--1784926	21	2.2	21	88	0	67	38	21	17	23	1.93
1787088--1787113	13	2.0	13	100	0	52	30	15	15	38	1.88
1789488--1789534	21	2.3	21	76	23	55	42	2	21	34	1.65
1789655--1789693	13	3.0	13	96	0	69	35	15	17	30	1.91
1789679--1789757	20	3.7	20	78	15	77	44	15	15	25	1.85
1791765--1791802	15	2.5	15	91	0	58	13	21	15	50	1.78
1793606--1793650	21	2.1	21	84	8	56	22	20	4	53	1.63
1795863--1795888	13	2.0	13	100	0	52	30	15	15	38	1.88
1801991--1802140	81	1.9	80	83	6	196	39	15	9	36	1.79
1805593--1805980	148	2.6	147	82	7	466	45	9	10	34	1.71
1806898--1806939	18	2.3	19	88	12	61	4	14	0	80	0.86
1806907--1806951	12	3.9	12	83	13	51	2	15	0	82	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1806906--1806951	10	4.4	10	80	20	58	2	15	0	82	0.76
1807605--1808224	167	3.8	158	87	7	777	49	8	11	30	1.69
1807441--1808224	322	2.4	322	82	7	902	48	9	10	31	1.69
1809316--1809552	43	5.6	43	75	7	214	46	14	22	16	1.83
1809285--1809508	43	5.3	41	73	11	175	47	14	21	16	1.82
1809257--1809547	85	3.4	85	86	2	370	46	14	21	17	1.84
1809257--1809593	85	4.0	85	81	5	351	47	13	21	18	1.82
1809257--1809593	170	2.0	171	84	2	446	47	13	21	18	1.82
1809726--1810049	47	6.9	47	78	4	305	40	17	19	21	1.91
1810015--1810212	35	5.7	35	82	1	209	48	14	18	18	1.80
1810023--1810212	69	2.7	70	84	1	220	48	14	18	18	1.81
1810134--1810298	86	1.9	86	86	2	233	47	10	20	22	1.80
1810220--1810551	35	9.5	35	80	5	294	44	12	20	21	1.85
1810220--1810551	70	4.7	70	77	3	335	44	12	20	21	1.85
1810031--1810438	226	1.8	225	83	1	539	46	12	19	21	1.82
1810220--1810551	105	3.2	105	78	5	364	44	12	20	21	1.85
1811173--1811576	89	5.0	76	71	15	265	30	14	25	29	1.95
1811249--1811709	89	5.3	89	76	8	389	28	14	27	28	1.95
1811364--1811661	164	1.8	165	85	0	418	29	16	25	28	1.97
1811135--1811709	253	2.3	253	86	2	778	28	14	27	29	1.95
1812845--1812871	13	2.1	13	100	0	54	29	14	14	40	1.86
1812855--1812911	19	2.9	19	86	2	78	31	14	17	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1812956--1812986	13	2.4	13	94	0	53	35	16	12	35	1.87
1814044--1814111	19	3.9	19	78	21	85	35	11	14	38	1.83
1814065--1814089	13	1.9	13	100	0	50	36	16	16	32	1.90
1814046--1814108	32	2.0	32	96	0	117	34	12	15	36	1.86
1814151--1814176	13	2.0	13	100	0	52	30	15	15	38	1.88
1814131--1814197	33	2.0	33	88	0	98	25	14	16	43	1.86
1816655--1816720	27	2.4	27	87	2	87	25	33	18	22	1.97
1816707--1816876	52	3.3	51	76	11	175	29	25	12	32	1.93
1816540--1816875	104	3.2	103	70	14	290	30	26	12	31	1.92
1816538--1816943	212	1.9	212	88	4	622	28	27	13	31	1.94
1816865--1816936	28	2.6	28	86	0	90	23	33	19	23	1.97
1823410--1823438	13	2.2	13	100	0	58	27	13	17	41	1.87
1824058--1824083	13	2.0	13	100	0	52	38	15	15	30	1.88
1824040--1824104	32	2.0	32	87	6	94	40	18	13	27	1.89
1830245--1830282	13	2.9	13	96	0	67	31	18	15	34	1.92
1830403--1830448	21	2.2	20	81	11	58	32	19	4	43	1.71
1832093--1832188	39	2.5	40	86	5	133	35	6	23	34	1.80
1832830--1832855	13	2.0	13	100	0	52	38	15	15	30	1.88
1832812--1832876	32	2.0	32	87	6	94	40	18	13	27	1.89
1835259--1835285	13	2.1	13	100	0	54	29	14	14	40	1.86
1835269--1835325	19	2.9	19	84	2	78	31	15	17	35	1.92
1835354--1835422	33	2.1	33	86	10	97	33	11	20	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1839597--1839654	20	2.8	20	97	2	107	31	10	13	44	1.78
1839708--1839733	13	2.0	13	100	0	52	30	15	15	38	1.88
1839688--1839751	32	2.0	32	90	9	103	28	15	15	40	1.88
1840372--1840457	38	2.3	37	82	15	97	31	23	5	39	1.78
1847907--1847932	13	2.0	13	100	0	52	30	15	15	38	1.88
1849434--1849557	62	2.0	62	100	0	248	24	24	12	38	1.90
1851849--1852094	89	2.8	90	80	3	275	43	12	19	25	1.86
1851960--1852121	87	1.9	87	81	2	200	45	12	19	22	1.84
1852194--1852220	4	6.8	4	100	0	54	25	0	0	74	0.83
1852352--1852567	112	1.9	112	87	3	319	38	16	15	29	1.90
1854916--1855429	166	3.1	162	79	9	524	32	12	6	48	1.66
1855471--1855510	16	2.3	18	87	8	57	22	0	0	77	0.77
1857296--1857707	154	2.6	154	83	5	481	23	17	21	37	1.94
1861886--1862176	161	1.8	161	85	3	415	38	20	16	24	1.92
1862323--1862733	143	2.9	140	83	6	470	45	10	9	33	1.71
1862465--1862733	142	1.9	141	87	6	366	46	10	9	33	1.69
1863295--1863335	21	2.0	21	85	9	57	68	2	7	21	1.26
1863248--1863599	167	2.1	166	83	5	444	52	7	9	30	1.62
1864470--1865136	165	4.0	163	76	8	557	31	12	8	46	1.72
1873639--1873664	13	2.0	13	100	0	52	30	15	15	38	1.88
1873619--1873686	33	2.1	32	91	2	109	35	19	13	32	1.90
1876433--1876489	20	2.8	20	83	0	69	38	14	15	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1876563--1876587	13	1.9	13	100	0	50	32	16	16	36	1.90
1876543--1876610	33	2.1	32	86	2	91	36	17	13	32	1.89
1882765--1882800	13	2.8	13	91	0	54	30	16	19	33	1.94
1889093--1889125	8	4.2	8	88	3	50	18	0	18	63	1.31
1891765--1891789	13	1.9	13	100	0	50	32	16	16	36	1.90
1892649--1892752	30	3.5	29	78	10	111	21	23	14	41	1.89
1892655--1892848	60	3.2	58	76	5	181	23	21	14	40	1.90
1892767--1892940	91	1.9	91	86	0	249	22	25	12	39	1.89
1892807--1893423	121	5.2	121	78	7	347	23	22	12	40	1.88
1892871--1893497	60	10.5	60	79	6	540	24	22	11	41	1.87
1892807--1893066	30	8.6	30	66	15	108	23	24	12	39	1.89
1892659--1893064	212	1.9	212	85	1	562	23	23	13	40	1.89
1893173--1893263	30	3.1	29	72	20	80	25	21	13	39	1.90
1894469--1894974	166	3.1	162	79	9	486	31	11	8	47	1.71
1894687--1895008	164	2.0	165	82	6	402	31	11	10	46	1.75
1899060--1899103	24	1.9	22	81	9	52	11	22	6	59	1.55
1900544--1900577	6	5.7	6	100	0	68	70	0	0	29	0.87
1900581--1900785	35	5.9	35	98	0	374	41	5	32	20	1.76
1902181--1902425	106	2.3	106	90	2	377	28	27	13	31	1.94
1902327--1902892	79	7.2	79	87	2	735	25	24	14	35	1.93
1902331--1902905	157	3.6	157	87	3	800	25	24	14	35	1.93
1910010--1910035	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1909990--1910057	33	2.1	32	88	2	100	35	17	13	33	1.89
1910057--1910091	10	3.5	10	92	0	52	25	22	31	20	1.98
1911103--1911128	13	2.0	13	100	0	52	30	15	15	38	1.88
1911827--1911870	21	2.1	21	83	8	54	25	31	4	38	1.76
1915779--1915809	15	2.1	15	93	0	53	12	22	16	48	1.80
1917611--1917658	21	2.3	21	79	10	55	20	20	4	54	1.61
1919865--1919890	13	2.0	13	100	0	52	30	15	15	38	1.88
1920945--1920997	27	2.0	27	85	3	72	22	13	37	26	1.91
1925990--1926139	81	1.9	80	85	4	212	40	14	8	36	1.77
1935507--1935532	13	2.0	13	100	0	52	30	15	15	38	1.88

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