genome.fa.s165.2.7.7.80.10.50.1000.10.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: Scaffold165
Parameters: 2 7 7 80 10 50 1000
Length:  1947055

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

This is table  10  of  11  ( 1218 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)
1774616--1774795	42	4.3	42	68	12	118	36	16	26	20	1.93
1774684--1775001	84	3.8	82	72	12	241	36	14	24	24	1.93
1774949--1775081	42	3.2	43	73	15	116	35	14	23	27	1.93
1775136--1775552	42	9.9	42	74	4	239	34	16	27	22	1.95
1775062--1775374	84	3.7	84	77	5	231	35	15	26	22	1.94
1775134--1775418	126	2.3	125	80	4	286	35	15	27	22	1.94
1775533--1775670	42	3.3	42	83	4	161	37	14	25	22	1.92
1775130--1775670	296	1.8	295	85	3	757	35	15	26	21	1.94
1775151--1775723	84	6.8	83	72	8	325	35	16	26	21	1.94
1775783--1776050	42	6.4	42	69	10	127	35	17	26	20	1.95
1775936--1776227	43	6.9	42	71	8	162	37	17	26	18	1.93
1776127--1776242	43	2.7	43	84	6	148	34	17	29	18	1.94
1776314--1776512	83	2.4	84	79	9	210	38	16	24	21	1.93
1776591--1776748	42	3.7	43	77	1	140	34	16	27	20	1.94
1777643--1778416	42	18.3	42	68	6	236	36	16	27	19	1.93
1778213--1778374	43	3.8	42	76	11	125	41	20	25	12	1.87
1778809--1779111	127	2.4	125	79	6	306	33	15	28	22	1.94
1778772--1779101	42	7.8	42	70	5	184	33	14	29	23	1.94
1779286--1779369	42	2.0	43	86	6	118	30	17	30	20	1.96
1779286--1779385	42	2.4	42	77	5	103	33	16	30	21	1.94
1779502--1779757	42	6.1	42	69	2	154	35	14	27	22	1.93
1779510--1779792	85	3.3	85	78	5	297	34	15	27	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1779747--1779827	42	1.9	43	84	2	110	39	20	20	18	1.93
1779841--1779937	42	2.3	42	80	0	104	39	16	24	19	1.92
1779950--1780092	76	1.9	75	81	4	171	33	16	31	18	1.93
1780149--1780236	42	2.1	42	82	0	104	32	19	23	23	1.97
1780606--1780814	43	5.0	42	72	9	131	34	16	27	21	1.95
1780633--1780821	85	2.2	84	81	5	220	34	16	28	20	1.95
1781205--1781420	84	2.6	83	76	5	213	34	16	28	20	1.94
1781164--1781595	126	3.4	123	77	6	404	35	16	26	21	1.94
1781129--1782369	42	29.4	42	68	7	188	35	16	26	20	1.94
1781695--1781899	43	4.8	43	65	12	118	38	14	28	19	1.90
1781695--1781899	85	2.4	86	76	10	222	38	14	28	19	1.90
1781721--1782199	126	3.8	126	79	3	347	35	16	26	21	1.94
1782045--1782230	85	2.2	84	79	0	210	36	17	26	20	1.94
1782864--1783094	77	3.0	77	93	0	374	24	14	34	27	1.94
1783017--1783592	89	6.4	89	85	3	730	28	13	28	29	1.94
1783017--1783592	179	3.2	177	84	5	718	28	13	28	29	1.94
1783017--1783582	268	2.1	269	85	4	779	28	13	28	28	1.94
1787064--1787090	13	2.1	13	100	0	54	40	14	14	29	1.86
1787129--1787186	13	4.0	13	74	23	53	36	15	13	34	1.87
1787143--1787205	19	3.7	18	76	24	73	36	17	12	33	1.88
1787130--1787205	32	2.4	32	95	0	134	36	17	13	32	1.88
1787706--1788010	88	3.5	86	74	6	263	43	16	17	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1787854--1787925	20	3.5	20	76	10	72	43	13	16	26	1.86
1787699--1787966	87	3.1	87	75	5	306	42	15	17	23	1.88
1787664--1787992	175	1.9	174	92	0	550	42	16	17	24	1.88
1792675--1793094	153	2.7	155	84	3	542	38	20	17	22	1.93
1794762--1794805	12	3.8	12	78	3	54	4	27	0	68	1.09
1794917--1794960	19	2.4	18	88	7	63	15	9	4	70	1.30
1795449--1795872	165	2.6	166	78	8	411	50	9	10	29	1.68
1798290--1798345	26	2.2	26	90	0	85	25	8	21	44	1.81
1803356--1803751	137	2.8	141	85	6	478	40	15	17	26	1.89
1803493--1803805	152	2.1	152	86	4	427	41	16	15	26	1.88
1804130--1804173	23	2.0	22	82	8	54	63	13	2	20	1.40
1805460--1805491	5	6.8	5	92	7	50	81	0	0	18	0.70
1808346--1808384	20	1.9	21	89	5	62	46	20	12	20	1.83
1815837--1815889	19	2.7	19	85	2	61	32	15	11	41	1.82
1815938--1815963	13	2.0	13	100	0	52	30	15	15	38	1.88
1815919--1815984	33	2.0	32	88	2	96	36	10	19	33	1.86
1820116--1820141	13	2.0	13	100	0	52	38	15	15	30	1.88
1820098--1820161	32	2.0	33	87	3	94	40	17	14	28	1.88
1824207--1824243	15	2.4	16	82	17	51	51	18	16	13	1.76
1826300--1826324	13	1.9	13	100	0	50	32	16	16	36	1.90
1826436--1826481	21	2.2	20	81	11	58	32	19	4	43	1.71
1828879--1828904	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1828861--1828924	32	2.0	33	87	3	94	40	17	14	28	1.88
1834401--1834471	20	3.5	20	90	3	99	38	14	18	29	1.90
1835507--1835560	20	2.8	19	83	5	72	27	14	16	40	1.88
1835587--1835641	20	2.8	20	86	5	67	38	10	20	30	1.87
1837634--1837673	19	2.1	19	86	9	55	45	0	25	30	1.54
1837836--1837946	56	2.0	56	94	0	195	39	9	21	28	1.85
1838464--1838517	20	2.7	20	88	0	72	37	12	16	33	1.87
1840715--1840739	12	2.1	12	100	0	50	24	16	24	36	1.94
1846652--1846692	14	3.0	13	86	10	55	85	12	2	0	0.70
1846652--1846692	20	2.1	19	90	4	64	85	12	2	0	0.70
1847686--1848026	73	4.7	73	87	0	475	24	23	14	38	1.92
1848033--1848491	73	6.5	71	74	13	281	26	22	13	37	1.92
1848027--1848379	140	2.5	141	84	3	446	26	21	14	37	1.92
1848800--1848840	20	2.0	21	90	4	66	41	12	19	26	1.87
1850005--1850070	32	2.0	32	85	2	87	33	16	13	36	1.88
1850040--1850154	20	5.7	20	69	18	76	33	20	15	30	1.94
1853507--1853550	21	2.1	21	91	0	70	34	4	20	40	1.73
1856292--1856317	13	2.0	13	100	0	52	30	15	15	38	1.88
1858796--1858853	13	4.9	13	70	23	56	32	15	15	36	1.89
1858794--1858872	33	2.4	32	91	6	124	30	15	15	39	1.88
1858842--1858893	20	2.7	20	90	3	79	30	13	17	38	1.88
1859154--1859210	23	2.5	23	94	2	98	61	19	8	10	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1862690--1862715	13	2.0	13	100	0	52	30	15	15	38	1.88
1862669--1862733	32	2.0	33	90	6	105	29	10	15	44	1.80
1867355--1867385	15	2.1	15	93	0	53	12	22	16	48	1.80
1871447--1871472	13	2.0	13	100	0	52	30	15	15	38	1.88
1871426--1871490	32	2.0	33	90	6	105	26	12	16	44	1.83
1872073--1872267	79	2.5	79	79	3	187	32	17	24	25	1.97
1872231--1872294	28	2.3	28	83	5	76	32	21	23	21	1.98
1872303--1872389	44	2.0	44	88	0	129	36	10	24	28	1.88
1874804--1874829	13	2.0	13	100	0	52	38	15	15	30	1.88
1874751--1874879	62	2.1	63	83	1	161	38	13	17	30	1.88
1875540--1875821	128	2.2	125	81	10	319	42	13	24	18	1.87
1875521--1875857	41	7.9	43	77	11	313	42	13	25	18	1.87
1875540--1875895	85	4.2	84	83	5	368	41	14	25	19	1.88
1875862--1876960	61	18.1	61	81	5	1160	29	18	26	25	1.98
1875862--1877256	244	5.8	241	80	9	1412	29	18	26	25	1.98
1875862--1877256	123	11.5	123	80	8	1355	29	18	26	25	1.98
1876068--1877276	61	20.1	55	72	18	500	29	19	26	25	1.98
1876812--1877127	169	1.9	162	84	5	418	31	19	24	25	1.98
1876965--1877256	62	4.6	62	79	11	315	31	18	25	24	1.97
1878366--1878419	16	3.5	15	76	11	56	3	1	9	85	0.80
1884057--1886964	729	4.0	729	98	0	5654	24	26	14	33	1.94
1893129--1893203	28	2.7	27	83	10	89	26	22	30	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1893050--1893251	108	1.9	107	83	3	262	31	14	27	26	1.95
1897617--1897666	21	2.4	21	83	9	59	48	0	20	32	1.50
1897624--1897666	21	2.0	22	86	4	61	51	0	20	27	1.48
1897775--1897800	13	2.0	13	100	0	52	38	15	15	30	1.88
1901708--1901741	3	11.3	3	87	0	50	29	32	0	38	1.58
1903348--1903377	13	2.3	13	94	0	51	36	16	16	30	1.91
1903422--1903475	19	2.9	19	88	2	74	35	16	16	31	1.92
1903460--1903486	13	2.1	13	100	0	54	40	14	14	29	1.86
1909004--1909042	15	2.6	15	79	0	51	17	0	38	43	1.50
1918512--1918542	12	2.7	12	95	5	55	41	12	0	45	1.42

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