genome.fa.s89.2.7.7.80.10.50.1000.12.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   

This is table  12  of  27  ( 3236 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)
1738763--1738835	21	3.4	21	69	23	55	53	0	2	43	1.15
1738889--1738933	23	2.0	21	83	8	54	42	0	0	57	0.98
1739408--1739472	19	3.6	17	74	15	60	56	0	0	43	0.99
1739428--1739459	16	1.9	17	93	6	57	53	0	0	46	1.00
1739451--1739495	22	2.0	24	82	8	58	48	4	0	46	1.22
1739466--1739501	13	2.8	13	91	0	54	44	5	0	50	1.25
1739700--1739758	30	2.0	30	83	6	75	59	1	8	30	1.37
1741575--1741616	14	2.7	16	78	14	52	47	0	0	52	1.00
1741538--1741601	22	2.8	23	79	9	78	42	0	0	57	0.98
1742161--1742206	17	2.7	17	82	0	56	41	2	6	50	1.40
1742654--1742710	21	2.6	22	75	10	55	57	0	5	36	1.21
1742864--1742904	16	2.5	17	84	11	59	48	2	0	48	1.14
1748861--1748932	24	3.0	24	75	6	74	47	1	0	51	1.09
1750070--1750099	13	2.3	13	94	0	51	43	0	3	53	1.17
1752390--1752424	18	1.9	18	88	0	52	62	14	20	2	1.43
1755064--1755100	19	1.9	19	88	0	56	59	0	40	0	0.97
1756089--1756121	17	1.9	18	88	11	52	27	3	3	66	1.21
1756108--1756175	11	5.9	12	73	16	72	32	4	0	63	1.14
1756108--1756175	35	2.0	33	85	5	91	32	4	0	63	1.14
1756197--1756267	30	2.4	28	79	11	72	43	0	0	56	0.99
1757548--1757590	14	3.2	13	78	15	52	51	0	0	48	1.00
1757589--1757645	30	1.9	30	85	7	80	54	1	0	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1773207--1773251	20	2.2	20	84	0	54	62	6	0	31	1.21
1777435--1777558	64	2.0	64	88	3	189	42	10	12	33	1.78
1777625--1777656	2	16.0	2	100	0	64	50	0	0	50	1.00
1793283--1793378	28	3.3	28	78	10	86	59	0	0	40	0.97
1793295--1793385	36	2.6	37	78	13	93	60	0	0	39	0.97
1793345--1793445	40	2.6	38	76	12	114	64	1	1	31	1.16
1794297--1794321	13	1.9	13	100	0	50	92	0	8	0	0.40
1796300--1796369	31	2.3	31	97	0	131	20	32	17	30	1.95
1805186--1805260	38	2.0	38	94	0	132	56	16	17	10	1.67
1805189--1805249	19	3.2	19	65	9	52	57	14	18	9	1.64
1809884--1809914	2	15.5	2	100	0	62	51	48	0	0	1.00
1812041--1812075	16	2.2	17	90	10	56	80	0	0	20	0.72
1812582--1812663	28	3.2	28	61	28	72	35	2	10	51	1.51
1812583--1812699	49	2.5	47	93	5	193	37	2	11	48	1.52
1819369--1819402	2	17.0	2	100	0	68	50	0	0	50	1.00
1820787--1820832	17	2.6	18	79	3	58	63	0	0	36	0.95
1820824--1820876	15	3.5	15	74	7	54	50	0	0	49	1.00
1820825--1820884	28	2.1	30	84	12	81	48	0	0	51	1.00
1821063--1821119	18	3.4	18	72	18	59	47	0	0	52	1.00
1821100--1821148	17	2.8	19	76	14	52	44	0	2	53	1.12
1827214--1827269	24	2.3	25	82	14	73	69	1	3	25	1.14
1827609--1827633	5	5.0	5	100	0	50	80	0	20	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1830679--1830713	2	18.0	2	88	5	54	54	0	0	45	0.99
1831075--1831135	14	4.1	15	80	16	56	67	0	0	32	0.91
1831079--1831137	15	3.8	16	76	13	52	66	0	0	33	0.92
1831075--1831153	31	2.6	30	76	20	76	64	0	0	35	0.94
1831075--1831146	16	4.7	15	71	19	51	68	0	0	31	0.90
1832135--1832201	22	2.8	24	84	11	84	46	0	0	53	1.00
1832139--1832209	33	2.2	33	85	5	101	45	0	0	54	0.99
1832148--1832202	8	6.9	8	76	15	51	41	0	0	58	0.98
1832122--1832199	17	4.8	17	71	16	58	47	0	0	52	1.00
1832136--1832207	18	4.2	18	74	13	55	44	0	0	55	0.99
1834286--1834333	19	2.6	18	77	6	51	52	6	0	41	1.27
1834927--1834978	11	4.5	11	74	9	50	61	1	0	36	1.07
1834940--1834985	19	2.4	19	82	7	58	63	4	0	32	1.14
1846033--1846091	14	4.1	14	76	10	57	35	1	1	61	1.16
1846057--1846096	12	3.2	12	85	3	53	35	0	0	65	0.93
1851390--1851475	25	3.5	26	75	12	92	47	0	2	50	1.14
1851391--1851472	16	5.6	15	75	15	73	46	0	2	51	1.14
1851398--1851475	21	3.7	21	73	10	68	46	0	2	51	1.14
1851391--1851475	5	16.4	5	74	11	73	47	0	2	50	1.14
1851420--1851493	33	2.3	33	83	6	89	52	0	2	44	1.15
1851394--1851495	43	2.4	42	77	11	100	48	0	2	49	1.16
1851453--1851515	24	2.7	23	85	7	83	52	0	3	44	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1853689--1853730	2	21.0	2	95	0	75	52	0	0	47	1.00
1857443--1857479	18	2.0	18	89	5	56	48	0	0	51	1.00
1857532--1857558	5	5.4	5	100	0	54	18	0	0	81	0.69
1857840--1857886	24	1.9	25	86	4	69	44	0	2	53	1.12
1859417--1859499	8	10.0	8	71	20	55	65	0	0	34	0.93
1859406--1859468	13	5.0	13	75	21	55	69	0	1	28	0.97
1859411--1859519	31	3.5	31	71	14	89	66	0	0	33	0.99
1859411--1859486	17	4.3	18	75	18	63	68	0	0	31	0.90
1861686--1861720	14	2.5	14	85	0	52	8	2	11	77	1.10
1873532--1873626	18	5.4	18	73	18	76	54	0	0	45	0.99
1873548--1873610	21	3.1	21	82	13	62	55	0	0	44	0.99
1874273--1874315	13	3.4	13	80	6	52	51	0	0	48	1.00
1874273--1874331	25	2.3	26	85	5	75	52	0	0	47	1.00
1874272--1874317	14	3.6	13	75	16	51	50	0	0	50	1.00
1874312--1874336	7	3.6	7	100	0	50	56	0	0	44	0.99
1877172--1877230	22	2.8	21	82	17	77	57	0	0	42	0.98
1878547--1878591	23	2.0	23	83	16	58	55	0	0	44	0.99
1878566--1878595	15	1.9	16	93	6	53	53	0	0	46	1.00
1880581--1880636	25	2.3	23	76	11	58	58	5	0	35	1.21
1880676--1880774	37	2.7	38	78	6	105	56	2	1	40	1.17
1880720--1880758	15	2.4	16	91	8	62	53	0	0	46	1.00
1880745--1880808	16	4.3	15	75	14	53	54	4	1	39	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882369--1882522	29	5.4	29	67	20	83	53	0	1	44	1.13
1883606--1883649	22	2.0	22	86	0	61	61	0	0	38	0.96
1886076--1886109	17	2.0	17	100	0	68	29	0	0	70	0.87
1891871--1891903	14	2.2	16	89	10	52	21	0	0	78	0.75
1893508--1893560	2	27.5	2	81	7	65	47	1	1	49	1.23
1896958--1896995	3	12.7	3	100	0	76	65	0	34	0	0.93
1903418--1903794	188	2.0	188	97	0	709	35	17	16	30	1.92
1903734--1903871	46	3.0	46	100	0	276	39	8	21	30	1.84
1903774--1903850	27	3.1	27	63	33	73	36	7	22	33	1.83
1905757--1905985	49	4.7	49	77	4	221	31	15	28	23	1.95
1916210--1916250	18	2.3	18	86	0	64	7	17	41	34	1.77
1916213--1916247	6	5.8	6	96	0	61	2	17	45	34	1.63
1919661--1919743	28	2.9	28	76	15	73	37	0	2	60	1.10
1919709--1919739	15	2.0	16	93	6	55	41	0	0	58	0.98
1923303--1923372	30	2.3	29	81	11	70	42	0	1	55	1.08
1927837--1927870	17	1.9	18	94	5	61	32	0	0	67	0.91
1928156--1928263	54	2.0	54	87	0	153	37	22	0	38	1.61
1929900--1929951	16	3.2	16	81	5	52	28	3	9	57	1.48
1930776--1930842	15	4.6	15	67	18	52	47	1	0	50	1.10
1930780--1930833	20	2.8	20	78	15	69	48	1	0	50	1.11
1931018--1931085	36	1.9	34	82	8	82	52	2	0	44	1.16
1931207--1931268	25	2.3	27	81	15	76	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1931218--1931257	21	1.9	21	85	10	55	52	0	0	47	1.00
1931190--1931267	35	2.3	34	74	12	79	56	0	0	43	0.99
1931274--1931300	14	1.9	14	100	0	54	59	0	0	40	0.98
1933764--1933819	24	2.3	24	84	6	69	41	0	3	55	1.17
1935090--1935142	22	2.5	22	81	3	63	37	0	0	62	0.96
1935187--1935237	25	2.1	24	82	7	59	37	1	3	56	1.29
1935929--1935969	21	2.0	21	90	9	66	41	0	0	58	0.98
1946537--1946582	10	4.5	11	78	13	53	58	0	0	41	0.98
1947434--1947484	22	2.3	22	80	12	61	47	0	1	50	1.12
1949092--1949133	19	2.2	20	91	4	68	28	0	0	71	0.86

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