genome.fa.s173.2.7.7.80.10.50.1000.14.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  14  of  16  ( 1814 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)
1798582--1798655	27	2.7	27	89	0	121	35	29	9	25	1.88
1798496--1798697	90	2.2	90	87	1	289	34	31	11	23	1.90
1800622--1800651	15	2.0	15	93	0	51	30	13	30	26	1.94
1803222--1803340	34	3.5	34	68	22	95	42	16	20	20	1.89
1803208--1803335	68	1.9	68	93	0	220	43	14	21	19	1.87
1803556--1803640	36	2.4	36	87	0	116	35	27	12	24	1.92
1805059--1805107	21	2.3	21	78	0	53	28	42	18	10	1.83
1805835--1805880	24	1.9	25	91	8	78	41	0	0	58	0.98
1805891--1805946	29	2.0	28	85	3	76	48	1	1	48	1.22
1806071--1806134	29	2.1	29	81	16	69	53	0	1	45	1.10
1806256--1806296	3	13.7	3	89	0	64	68	2	2	26	1.15
1806345--1806385	17	2.5	17	88	7	59	39	2	0	58	1.11
1806390--1806442	15	3.5	15	75	10	63	37	7	0	54	1.29
1806399--1806426	12	2.3	12	100	0	56	35	7	0	57	1.26
1806487--1806514	3	9.3	3	100	0	56	64	0	0	35	0.94
1806961--1807036	35	2.1	35	95	2	134	17	9	11	61	1.55
1807190--1807314	63	1.9	66	90	4	202	22	7	14	56	1.63
1814576--1814607	2	16.0	2	100	0	64	50	0	0	50	1.00
1815199--1815290	17	5.5	17	70	22	61	54	2	0	43	1.12
1815188--1815267	33	2.5	33	84	7	105	55	2	0	42	1.13
1816170--1816211	13	3.5	12	84	9	50	45	0	2	52	1.13
1816474--1816510	3	12.0	3	88	5	56	64	2	0	32	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817648--1817692	2	22.5	2	100	0	90	51	0	0	48	1.00
1820229--1820329	44	2.3	44	91	6	161	44	4	8	41	1.57
1824280--1824310	2	15.5	2	100	0	62	48	0	0	51	1.00
1824749--1824782	2	17.0	2	100	0	68	50	0	0	50	1.00
1825841--1825871	15	2.1	15	93	0	53	35	0	19	45	1.51
1825937--1825975	15	2.5	16	91	4	62	38	2	0	58	1.12
1827081--1827116	18	2.0	18	88	0	54	50	0	13	36	1.43
1827872--1827914	16	2.6	17	82	14	54	39	4	4	51	1.44
1829559--1829592	2	17.0	2	100	0	68	50	0	0	50	1.00
1829970--1830014	15	2.9	16	81	15	51	64	0	0	35	0.94
1830151--1830184	15	2.3	15	100	0	68	32	29	0	38	1.58
1830726--1830750	4	6.2	4	100	0	50	76	0	0	24	0.80
1831284--1831321	3	12.7	3	100	0	76	68	0	0	31	0.90
1832635--1832730	47	2.0	47	95	0	174	40	3	11	44	1.56
1834071--1834105	18	1.9	18	88	0	52	31	2	5	60	1.35
1835785--1835823	15	2.7	14	84	7	51	25	10	25	38	1.87
1837027--1837057	16	1.9	16	93	0	53	48	6	6	38	1.55
1840614--1840659	21	2.2	20	82	14	58	26	17	15	41	1.88
1843128--1843194	25	2.5	28	74	16	70	44	4	0	50	1.22
1843424--1843466	2	22.0	2	95	4	79	48	0	0	51	1.00
1843423--1843471	8	6.6	7	93	6	55	46	0	0	53	1.00
1844184--1844219	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844473--1844527	25	2.1	27	83	16	71	32	3	3	60	1.32
1844598--1844644	15	2.9	16	78	15	53	61	0	0	38	0.96
1844600--1844644	17	2.7	17	80	13	58	64	0	0	35	0.94
1844600--1844646	16	2.9	16	75	15	51	61	0	0	38	0.96
1844611--1844662	28	1.9	27	84	7	70	67	0	0	32	0.91
1844694--1844758	20	3.2	20	68	12	51	55	1	1	41	1.18
1845153--1845196	16	2.6	17	78	3	54	43	0	0	56	0.99
1846341--1846393	24	2.2	24	93	0	88	33	1	16	47	1.58
1846348--1846392	22	2.0	22	91	0	72	33	2	15	48	1.57
1847041--1847093	18	3.2	18	70	24	53	58	0	1	39	1.09
1847101--1847139	16	2.4	16	83	8	53	61	0	2	35	1.10
1847492--1847523	15	2.1	16	94	5	57	46	3	0	50	1.17
1847568--1847599	16	2.0	16	93	0	55	46	0	3	50	1.17
1852329--1852368	20	2.0	20	85	14	55	60	2	0	37	1.11
1852891--1853303	225	1.8	227	84	3	564	39	9	13	37	1.76
1853731--1854865	228	5.0	228	80	3	1171	38	10	14	35	1.82
1856220--1856266	2	23.5	2	100	0	94	51	0	0	48	1.00
1860096--1860135	14	2.6	16	80	11	57	60	2	0	37	1.11
1866974--1867036	2	31.5	2	96	0	117	50	1	0	47	1.10
1869152--1869211	30	2.0	30	100	0	120	43	16	10	30	1.81
1871025--1871070	24	1.9	24	90	0	74	43	28	6	21	1.77
1873034--1873079	21	2.1	22	84	4	58	19	30	19	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1875652--1875736	30	2.8	30	100	0	170	52	21	8	17	1.70
1877108--1877147	15	2.7	15	81	14	55	60	0	2	37	1.11
1878081--1878148	21	2.8	24	72	19	61	51	1	8	38	1.42
1878093--1878146	21	2.6	21	88	2	74	53	0	7	38	1.29
1878311--1878381	21	3.2	22	74	21	67	61	0	0	38	0.96
1878234--1878383	64	2.4	64	70	8	146	56	2	2	39	1.22
1878349--1878396	21	2.3	21	88	0	69	75	0	0	25	0.81
1878367--1878398	13	2.4	14	94	5	57	81	0	0	18	0.70
1878544--1878570	2	13.5	2	100	0	54	51	0	0	48	1.00
1879331--1879363	15	2.2	15	94	0	57	45	0	0	54	0.99
1881397--1881439	22	2.0	22	86	9	61	39	0	2	58	1.11
1881832--1882050	34	6.5	34	86	2	289	25	7	26	40	1.82
1881832--1882050	102	2.2	101	90	1	348	25	7	26	40	1.82
1886461--1886679	34	6.5	34	86	2	289	25	7	26	40	1.82
1886461--1886679	102	2.2	101	90	1	348	25	7	26	40	1.82
1888238--1888377	39	3.6	39	79	6	151	30	3	15	51	1.60
1888957--1888981	2	12.5	2	100	0	50	52	0	0	48	1.00
1890579--1890627	3	16.3	3	100	0	98	32	0	0	67	0.91
1891253--1891313	2	30.5	2	100	0	122	49	0	0	50	1.00
1891559--1891600	19	2.2	20	87	12	61	19	0	2	78	0.86
1891562--1891602	14	2.8	15	85	7	57	21	0	2	75	0.92
1891649--1891710	32	1.9	32	96	0	115	37	3	8	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1892454--1892493	20	1.9	20	85	10	53	55	15	15	15	1.71
1892663--1892698	16	2.3	16	85	4	56	11	0	22	66	1.22
1892801--1892914	59	1.9	59	89	0	174	49	18	6	26	1.71
1892929--1893018	47	1.9	47	88	0	135	41	15	6	36	1.74
1892929--1893040	47	2.4	47	83	0	134	40	16	7	35	1.77
1898978--1899025	18	2.6	18	80	3	60	70	6	20	2	1.19
1898965--1899025	6	9.8	6	75	7	50	73	6	18	1	1.12
1899417--1899456	2	20.0	2	100	0	80	50	0	0	50	1.00
1900149--1900195	20	2.3	21	85	7	62	42	4	0	53	1.20
1900386--1900414	4	7.2	4	100	0	58	51	0	0	48	1.00
1900538--1900583	22	2.1	22	95	0	83	26	2	13	58	1.46
1900782--1900864	38	2.2	37	80	6	96	63	2	1	32	1.15
1900839--1900905	22	3.0	22	73	4	55	56	8	0	34	1.31
1909847--1909974	52	2.5	52	94	3	224	30	17	17	33	1.94
1909983--1910007	13	1.9	13	100	0	50	36	16	16	32	1.90
1910048--1910114	33	2.0	33	88	0	98	40	13	11	34	1.81
1910070--1910094	13	1.9	13	100	0	50	32	16	16	36	1.90
1911820--1911908	34	2.6	34	90	0	142	26	0	31	41	1.56
1911809--1911920	34	3.3	34	85	1	134	26	0	33	39	1.63
1912225--1912280	19	2.9	19	71	5	51	35	3	0	60	1.14
1912308--1912371	25	2.5	26	77	10	69	35	1	1	60	1.15
1912226--1912375	78	1.9	80	80	13	177	38	2	1	58	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1912676--1912705	2	15.0	2	100	0	60	50	0	0	50	1.00
1913048--1913086	20	2.0	19	85	5	51	56	0	0	43	0.99
1913750--1913798	14	3.4	14	73	15	55	51	0	0	48	1.00
1913737--1913811	29	2.6	29	97	2	143	48	0	0	52	1.00
1913804--1913845	20	2.3	17	88	12	57	57	2	0	40	1.12
1915148--1915189	20	2.0	21	86	4	59	59	0	0	40	0.97
1916330--1916373	3	14.7	3	100	0	88	31	0	0	68	0.90
1921112--1921141	2	15.5	2	93	6	53	50	0	0	50	1.00
1922136--1922211	29	2.7	26	73	16	62	52	1	0	46	1.08
1922585--1922669	29	2.9	29	81	8	109	58	0	4	36	1.19

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16