genome.fa.s16.2.7.7.80.10.50.1000.12.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   

This is table  12  of  35  ( 4175 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)
1779921--1779958	12	2.9	14	81	18	55	86	0	13	0	0.56
1779921--1779965	11	3.9	12	85	8	58	82	0	17	0	0.68
1781692--1781898	96	2.1	96	87	5	301	30	28	9	31	1.88
1783421--1783447	13	2.1	13	100	0	54	29	14	14	40	1.86
1783496--1783564	33	2.1	33	83	5	86	33	13	17	36	1.88
1789726--1789980	61	4.3	61	85	4	328	26	25	19	28	1.99
1789726--1789980	121	2.2	116	87	5	361	26	25	19	28	1.99
1792475--1792660	51	3.7	50	86	2	228	30	26	11	31	1.91
1792592--1792763	79	2.2	79	80	5	195	26	26	14	32	1.95
1794840--1794866	4	6.8	4	100	0	54	22	0	0	77	0.76
1803473--1803498	13	2.0	13	100	0	52	30	15	15	38	1.88
1803537--1803612	21	3.7	21	82	3	109	28	18	11	40	1.86
1803557--1803630	20	3.7	20	81	3	103	31	20	13	35	1.91
1803537--1803630	41	2.3	41	100	0	188	29	19	12	38	1.89
1806374--1806454	1	81.0	1	75	0	72	87	12	0	0	0.54
1806373--1806452	9	9.0	9	89	10	121	86	13	0	0	0.58
1807455--1808178	55	13.0	55	88	6	1057	28	29	19	22	1.98
1807656--1807740	27	3.1	27	61	15	66	28	29	18	23	1.98
1807455--1808178	335	2.2	332	90	5	1129	28	29	19	22	1.98
1807959--1808104	28	5.2	29	62	18	85	28	30	19	21	1.97
1808972--1809022	19	2.7	19	96	0	93	31	9	19	39	1.84
1811455--1811636	51	3.6	51	90	3	260	29	25	12	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1811572--1811745	79	2.2	78	80	7	206	27	29	13	29	1.94
1812937--1812963	13	2.1	13	100	0	54	29	14	14	40	1.86
1815514--1815578	33	2.0	32	87	3	94	29	16	13	40	1.88
1815543--1815600	19	3.1	18	88	11	89	34	15	17	32	1.91
1815544--1815599	20	2.8	20	92	7	89	32	16	17	33	1.92
1815628--1815681	20	2.7	20	91	5	83	33	12	18	35	1.89
1816467--1816522	20	2.8	20	100	0	112	33	14	19	32	1.92
1816551--1816604	20	2.7	20	88	5	74	37	12	14	35	1.85
1817779--1817812	14	2.4	14	90	9	52	61	5	2	29	1.34
1821813--1821868	29	1.9	29	88	0	85	64	7	12	16	1.48
1826697--1826749	27	2.0	27	96	0	97	60	9	15	15	1.58
1828319--1828369	16	3.3	16	69	20	54	21	13	9	54	1.67
1834178--1834272	30	3.1	29	79	10	84	25	27	12	34	1.92
1841958--1842010	21	2.4	22	78	15	56	1	37	3	56	1.28
1848166--1848624	159	2.8	158	86	3	589	40	7	18	33	1.78
1851267--1851673	52	7.9	52	77	7	337	33	15	26	23	1.95
1851267--1851709	156	2.9	151	80	9	463	32	15	27	24	1.95
1851897--1852046	35	4.5	33	81	12	175	38	11	30	20	1.88
1851914--1852046	69	2.0	69	85	8	186	39	12	30	18	1.87
1851897--1852043	32	4.5	33	80	9	160	37	11	29	21	1.89
1852026--1852065	19	2.1	19	95	0	71	42	5	27	25	1.75
1852046--1852807	34	23.2	33	69	16	356	38	9	29	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852112--1852694	103	5.9	102	72	14	298	38	9	30	21	1.85
1852372--1852596	69	3.3	69	85	3	285	40	9	28	20	1.85
1852508--1852689	93	1.9	93	87	6	269	36	9	31	22	1.86
1852591--1852754	67	2.5	67	81	5	181	39	10	29	21	1.86
1852441--1852812	162	2.3	162	84	4	473	37	10	29	22	1.87
1854024--1854077	15	3.5	15	84	2	72	3	0	7	88	0.61
1854024--1854077	9	5.7	9	83	12	63	3	0	7	88	0.61
1854023--1854077	24	2.3	24	90	6	85	5	0	7	87	0.68
1854024--1854077	1	54.0	1	77	0	54	3	0	7	88	0.61
1857388--1857412	13	1.9	13	100	0	50	36	16	16	32	1.90
1857368--1857434	33	2.0	33	88	0	98	32	11	14	40	1.83
1857474--1857623	52	2.9	50	89	5	219	34	17	17	31	1.93
1872907--1873502	30	19.7	29	76	9	364	27	30	16	26	1.96
1873147--1873423	35	8.7	34	74	12	132	23	31	14	31	1.94
1873212--1873522	28	10.4	28	76	12	166	29	30	16	24	1.96
1873025--1873502	185	2.6	185	90	2	737	26	30	15	26	1.96
1872907--1873502	57	9.9	59	75	10	400	27	30	16	26	1.96
1873332--1873423	34	2.7	35	77	5	98	20	31	11	35	1.89
1873397--1873548	28	5.3	28	87	5	191	35	28	16	19	1.94
1873570--1873805	52	4.7	51	74	12	231	23	24	19	32	1.98
1873571--1873747	95	1.9	95	86	4	259	23	26	20	29	1.99
1874597--1874621	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1874577--1874643	33	2.0	33	88	0	98	32	11	14	40	1.83
1874717--1874845	52	2.5	52	96	0	231	35	15	17	31	1.91
1879984--1880011	13	2.2	13	100	0	56	28	14	17	39	1.89
1879964--1880029	33	2.0	33	88	5	98	30	15	13	40	1.85
1882713--1882766	21	2.7	20	85	5	72	27	0	1	70	0.98
1882717--1882764	16	3.0	16	81	9	62	25	0	2	72	0.95
1884452--1884799	154	2.3	154	82	2	405	50	7	8	33	1.62
1884566--1884846	154	1.8	153	82	3	359	48	6	10	34	1.63
1885871--1885958	16	5.5	16	81	0	95	10	9	32	47	1.69
1885850--1885958	32	3.4	32	79	1	101	9	9	33	48	1.67
1886845--1886895	19	2.7	18	82	8	57	50	5	0	43	1.26
1887000--1887130	16	8.2	16	78	5	122	14	15	30	39	1.87
1887004--1887130	48	2.6	47	83	4	155	14	14	29	40	1.87
1887925--1887970	21	2.1	22	92	4	76	34	26	0	39	1.57
1887936--1888013	20	4.0	20	77	12	81	30	21	1	46	1.60
1890751--1890807	19	2.9	19	89	2	87	33	14	14	38	1.85
1890838--1890902	33	2.0	32	85	11	87	36	15	16	30	1.90
1892420--1892450	15	2.1	15	93	0	53	45	0	25	29	1.54
1900073--1900129	29	2.0	29	96	0	105	35	5	28	31	1.79
1904361--1904425	33	2.0	33	87	6	96	33	13	18	33	1.90
1909310--1909377	33	2.1	33	94	2	120	32	10	17	39	1.84
1909410--1909459	20	2.5	20	90	0	73	30	16	14	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1913017--1913058	22	2.0	21	86	9	59	42	9	9	38	1.70
1913277--1913351	20	3.8	20	87	3	107	34	9	18	37	1.83
1913781--1913932	32	4.8	31	82	13	186	30	13	25	31	1.93
1913781--1913938	64	2.5	65	85	11	218	30	12	25	31	1.93
1915508--1915565	21	2.7	22	75	15	59	55	1	22	20	1.53
1925556--1925844	30	9.3	30	78	7	240	20	26	15	36	1.93
1925556--1925870	62	5.0	62	83	5	348	21	26	15	36	1.93
1925563--1925873	33	9.9	33	80	8	310	21	26	15	36	1.94
1925563--1925881	94	3.4	94	83	3	394	22	26	15	35	1.94
1925579--1925904	62	5.2	64	80	8	183	21	26	15	35	1.94
1925884--1926320	27	14.6	28	74	17	253	21	32	14	30	1.93
1925900--1926775	33	27.9	32	77	13	633	20	32	13	34	1.91
1925927--1926262	183	1.8	183	91	3	552	22	32	13	31	1.92
1926049--1926409	123	2.9	122	82	8	369	20	31	13	34	1.91
1925899--1926774	60	14.0	65	78	10	620	20	32	13	34	1.91
1926459--1926568	27	3.9	27	71	17	69	20	32	14	31	1.93
1926233--1926744	253	2.0	253	87	1	740	19	32	12	35	1.89
1926766--1927092	91	3.5	92	86	3	377	25	25	17	31	1.97
1926766--1927613	87	9.1	92	77	10	462	25	25	17	31	1.97
1926871--1927136	142	1.9	139	86	3	381	26	25	17	30	1.97
1927057--1927305	39	5.9	39	70	15	147	27	26	18	26	1.98
1927014--1927358	87	4.0	87	88	0	501	26	26	19	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1927285--1927803	49	10.4	49	72	6	328	23	25	17	32	1.97
1927287--1927561	101	2.7	101	80	3	297	23	25	18	33	1.97
1927378--1927656	148	1.9	148	93	0	477	22	25	17	33	1.96
1927526--1927757	101	2.3	101	95	0	410	24	26	17	31	1.97
1927284--1927803	249	2.1	249	87	2	731	23	25	17	32	1.97
1937520--1937587	27	2.5	27	100	0	136	20	14	38	26	1.91
1942634--1942880	79	3.1	79	80	5	259	26	24	12	37	1.90
1942774--1943047	130	2.1	130	81	4	320	27	24	13	35	1.92
1942696--1943176	209	2.3	207	79	4	504	28	25	11	34	1.91
1942903--1943126	79	2.8	79	80	3	238	29	25	11	33	1.91

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