genome.fa.s196.2.7.7.80.10.50.1000.13.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  13  of  47  ( 5587 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)
1762708--1762803	28	3.5	28	75	15	92	41	0	1	57	1.06
1767876--1768057	97	1.9	97	81	2	222	39	9	23	27	1.86
1769918--1769942	13	1.9	13	100	0	50	32	16	20	32	1.94
1770297--1770336	21	1.9	21	89	0	62	20	0	10	70	1.16
1772672--1772696	13	1.9	13	100	0	50	36	16	16	32	1.90
1772649--1772716	33	2.1	33	89	8	104	32	13	17	36	1.89
1772748--1772800	20	2.6	21	84	3	72	28	15	16	39	1.89
1772788--1772816	13	2.2	13	100	0	58	37	13	17	31	1.89
1772802--1772852	20	2.5	20	87	0	66	33	15	15	35	1.90
1773283--1773338	20	2.9	18	84	10	67	41	12	8	37	1.74
1773347--1773387	20	2.0	20	86	9	57	34	12	9	43	1.75
1773303--1773438	49	2.7	51	85	5	170	32	13	11	41	1.81
1775016--1775060	22	2.0	23	83	16	58	35	13	11	40	1.80
1778981--1779041	21	2.9	21	92	2	104	49	0	21	29	1.50
1778977--1779041	10	6.4	10	77	20	64	50	0	21	27	1.49
1783622--1783652	15	2.1	15	100	0	62	25	35	0	38	1.56
1785248--1785298	20	2.5	20	93	0	93	35	15	11	37	1.84
1785343--1785398	19	2.8	20	86	2	78	35	16	16	32	1.90
1785383--1785409	13	2.1	13	100	0	54	40	14	14	29	1.86
1788175--1788347	79	2.2	79	80	8	192	31	13	26	28	1.94
1788281--1788395	51	2.3	51	86	1	160	31	11	28	28	1.91
1788244--1788477	129	1.8	129	80	7	287	33	14	24	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1788332--1788637	157	1.9	158	81	3	366	32	14	25	28	1.94
1788332--1788637	79	3.9	79	80	5	325	32	14	25	28	1.94
1791642--1791723	33	2.4	34	87	2	112	40	15	26	17	1.89
1791696--1791814	42	2.9	42	83	6	136	42	13	24	20	1.88
1791696--1791840	42	3.5	42	80	5	125	38	14	24	22	1.91
1791821--1792276	61	7.5	59	84	5	516	28	18	26	26	1.98
1791829--1792275	182	2.4	184	84	5	573	28	18	26	25	1.98
1791816--1792276	121	3.8	122	83	3	552	28	18	26	26	1.98
1802109--1802166	29	2.0	29	93	0	98	27	18	25	27	1.98
1805871--1805896	8	3.2	8	100	0	52	11	11	26	50	1.73
1806506--1806626	52	2.3	52	97	0	224	28	18	18	34	1.94
1806506--1806646	52	2.7	51	90	4	212	30	17	18	33	1.94
1806635--1806659	13	1.9	13	100	0	50	36	16	16	32	1.90
1807638--1808546	49	18.9	49	84	7	1111	31	17	26	24	1.97
1807647--1808495	140	6.0	143	89	6	1094	30	18	26	24	1.97
1807647--1808546	476	1.9	474	91	3	1475	31	17	26	25	1.97
1808546--1808610	34	1.9	34	96	0	121	18	18	35	27	1.94
1808601--1809201	34	17.3	34	86	7	766	33	12	33	20	1.90
1808601--1809234	105	6.1	101	86	6	769	34	12	32	20	1.90
1808601--1809234	140	4.6	138	89	5	831	34	12	32	20	1.90
1808625--1809296	34	19.8	31	78	12	349	33	13	32	20	1.91
1809108--1809387	93	3.0	94	81	9	286	28	16	31	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809193--1809390	62	3.2	63	86	7	280	28	16	30	24	1.97
1809212--1809387	31	5.7	31	89	6	259	25	18	30	25	1.98
1810323--1810357	1	35.0	1	88	0	52	0	2	2	94	0.37
1810682--1810720	1	39.0	1	84	0	51	0	5	2	92	0.46
1810682--1810720	17	2.2	18	95	4	71	0	5	2	92	0.46
1810682--1810726	9	5.0	9	89	8	56	0	4	6	88	0.61
1817021--1817046	8	3.2	8	100	0	52	11	11	26	50	1.73
1817656--1817776	52	2.3	52	97	0	224	28	18	18	34	1.94
1817656--1817796	52	2.7	51	90	4	212	30	17	18	33	1.94
1817785--1817809	13	1.9	13	100	0	50	36	16	16	32	1.90
1817851--1817879	13	2.2	13	100	0	58	31	17	13	37	1.89
1818218--1818252	4	8.8	4	93	0	61	74	0	2	22	0.95
1820308--1820478	78	2.2	78	84	3	209	30	15	25	28	1.96
1820417--1820530	51	2.2	51	85	0	156	31	12	25	30	1.92
1820368--1820608	130	1.9	129	83	6	317	33	12	24	29	1.92
1820466--1820767	79	3.8	78	81	6	340	31	11	26	30	1.91
1820308--1820687	209	1.8	208	83	6	509	31	13	25	29	1.93
1820465--1820770	158	1.9	158	85	7	417	31	11	25	30	1.92
1823749--1824147	170	2.3	168	77	8	387	21	31	13	34	1.91
1823928--1824084	43	3.7	43	73	8	106	19	31	12	35	1.90
1823743--1824147	85	4.8	85	75	6	329	20	30	13	34	1.92
1825167--1825507	165	2.1	167	88	2	501	29	10	7	53	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1825202--1825583	165	2.3	164	83	5	475	29	10	7	52	1.63
1825202--1825634	165	2.6	163	80	7	455	30	10	8	51	1.66
1826110--1826147	18	2.0	19	90	10	60	78	0	18	2	0.86
1826125--1826155	14	2.2	14	94	0	53	74	0	16	9	1.07
1846247--1847334	42	25.7	42	72	10	522	35	18	28	18	1.94
1846249--1847379	85	13.4	85	81	5	1055	35	18	28	18	1.94
1857071--1857207	51	2.7	51	84	0	184	46	10	12	29	1.76
1857351--1857394	21	2.1	21	82	0	52	31	13	18	36	1.90
1857831--1857986	48	3.3	47	83	7	172	36	10	12	40	1.78
1859842--1860012	86	2.0	86	94	0	297	33	7	15	43	1.75
1867269--1867298	13	2.3	13	100	0	60	30	16	13	40	1.87
1867314--1867387	20	3.7	19	87	7	103	28	16	13	41	1.86
1869532--1869618	38	2.2	39	79	4	95	31	24	5	39	1.79
1870679--1870761	24	3.3	24	69	18	78	39	16	16	26	1.90
1870699--1870778	26	3.1	26	66	20	76	41	13	18	26	1.88
1870675--1870778	52	2.0	52	100	0	208	42	15	17	25	1.88
1871034--1871076	20	2.1	20	86	4	59	9	30	44	16	1.79
1877685--1877737	19	2.7	20	88	8	81	26	13	18	41	1.87
1877685--1877743	19	3.0	19	83	14	75	23	11	22	42	1.86
1879684--1879878	51	3.8	51	77	4	205	30	22	11	35	1.90
1879660--1879882	102	2.2	102	85	0	293	28	24	13	34	1.93
1880001--1880120	51	2.4	51	83	5	154	30	25	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1881291--1883653	474	5.0	474	99	0	4649	38	15	11	35	1.83
1884738--1884795	26	2.2	26	93	3	98	58	3	6	31	1.41
1884747--1884936	27	7.2	25	68	14	82	48	5	7	37	1.56
1888579--1888622	22	2.0	22	86	8	63	47	4	0	47	1.22
1888808--1888851	23	1.9	23	90	9	72	54	0	0	45	0.99
1898179--1898425	122	2.0	122	94	0	431	29	14	17	37	1.90
1903167--1903212	21	2.2	20	85	11	58	36	15	17	30	1.91
1905650--1905698	26	1.9	26	83	4	64	26	32	12	28	1.92
1907546--1907570	13	1.9	13	100	0	50	36	16	16	32	1.90
1907523--1907590	33	2.1	33	91	2	111	33	14	16	35	1.89
1912674--1912699	13	2.0	13	100	0	52	30	15	15	38	1.88
1912654--1912717	33	2.0	32	90	3	101	26	14	20	39	1.90
1912759--1912811	20	2.6	21	82	8	65	30	16	15	37	1.90
1912799--1912823	13	1.9	13	100	0	50	36	16	16	32	1.90
1912835--1912873	20	2.0	20	89	0	60	28	10	20	41	1.85
1915289--1915326	13	2.9	13	96	0	67	34	18	15	31	1.92
1915523--1915553	8	3.8	8	95	4	53	61	22	0	16	1.34
1921484--1921509	13	2.0	13	100	0	52	30	15	15	38	1.88
1921464--1921527	33	2.0	32	87	3	92	28	14	18	39	1.90
1921623--1921674	20	2.6	19	85	8	68	26	13	19	40	1.88
1928547--1928589	21	2.2	20	87	8	61	65	9	4	20	1.40
1928547--1928590	20	2.1	21	87	4	63	65	9	4	20	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1928537--1928591	21	2.5	22	77	14	60	63	10	5	20	1.46
1929372--1929426	21	2.5	22	94	5	103	27	23	10	38	1.88
1929499--1929525	13	2.1	13	100	0	54	29	22	14	33	1.94
1929994--1930060	37	1.9	35	88	11	102	32	11	25	29	1.92
1931151--1931192	21	2.0	21	85	0	57	42	4	28	23	1.74
1931581--1931741	84	1.9	84	82	5	200	53	3	18	25	1.59
1933274--1933298	13	1.9	13	100	0	50	36	16	16	32	1.90
1933442--1934752	655	2.0	655	100	0	2622	30	16	12	39	1.86
1935770--1935824	21	2.5	22	94	5	94	29	23	9	38	1.85
1935897--1935936	13	3.1	13	96	0	71	30	20	15	35	1.93

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47