genome.fa.s20.2.7.7.80.10.50.1000.13.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: Scaffold20
Parameters: 2 7 7 80 10 50 1000
Length:  3599867

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   

This is table  13  of  25  ( 2919 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)
1837187--1837231	20	2.2	20	84	8	54	46	11	2	40	1.52
1837610--1837691	21	3.9	21	65	22	55	43	0	2	53	1.13
1837684--1837730	19	2.5	19	82	3	60	29	0	0	70	0.88
1837723--1837765	4	10.5	4	80	5	50	23	0	6	69	1.12
1837780--1837852	26	2.9	26	73	4	78	57	1	4	36	1.26
1842391--1842418	2	14.0	2	100	0	56	50	0	0	50	1.00
1843269--1843293	12	2.1	12	100	0	50	40	0	0	60	0.97
1843855--1843912	11	4.9	12	72	18	50	44	1	0	53	1.10
1843857--1843900	17	2.6	16	82	17	54	40	0	0	59	0.98
1843859--1843912	13	4.6	12	73	17	51	42	1	0	55	1.10
1844481--1844526	15	3.0	15	78	6	56	54	10	0	34	1.36
1844481--1844523	16	2.8	15	82	3	50	53	11	0	34	1.37
1844515--1844548	15	2.3	15	89	0	50	29	17	0	52	1.45
1845054--1845095	22	2.0	22	85	4	59	28	2	0	69	1.01
1846013--1846045	15	2.2	15	94	0	57	27	3	6	63	1.32
1846605--1846643	14	2.6	15	88	8	53	35	0	0	64	0.94
1849218--1849870	53	12.8	52	75	14	404	52	4	1	41	1.33
1849249--1849884	52	12.3	50	76	12	453	52	4	2	40	1.32
1849265--1849883	105	6.0	103	77	12	546	52	4	2	41	1.32
1849954--1849995	22	1.9	22	90	0	66	38	11	7	42	1.69
1850086--1850164	22	3.6	22	89	0	104	40	6	10	43	1.64
1850485--1850569	22	4.0	22	74	11	70	38	3	9	48	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850519--1850560	18	2.3	18	95	0	75	38	0	9	52	1.34
1850648--1851394	52	14.5	52	79	10	693	38	1	4	55	1.31
1850648--1851394	107	7.3	104	79	11	654	38	1	4	55	1.31
1850697--1851386	101	6.8	96	78	14	412	38	1	4	54	1.32
1851424--1851459	18	2.0	18	89	10	56	33	8	8	50	1.63
1853169--1853379	72	2.9	72	74	14	175	32	0	11	55	1.42
1853515--1853856	73	4.8	71	76	12	301	31	1	11	55	1.46
1853515--1853803	72	4.1	70	79	11	245	31	2	10	55	1.45
1853994--1854140	70	2.2	68	81	10	162	29	2	12	55	1.52
1854021--1854177	70	2.2	67	84	7	197	28	1	11	57	1.44
1853187--1854176	470	2.1	461	81	8	1149	32	2	12	53	1.50
1856560--1856617	20	2.9	20	85	10	91	31	18	12	37	1.88
1856642--1856695	19	2.8	20	85	5	83	40	11	16	31	1.84
1856662--1856726	32	2.0	33	85	8	89	43	13	12	30	1.81
1858197--1858532	74	4.7	72	81	7	371	54	10	1	33	1.45
1858198--1858556	146	2.5	146	82	6	396	54	10	1	33	1.45
1858601--1858635	14	2.5	14	90	0	52	68	0	0	31	0.90
1861381--1861424	22	2.1	20	83	8	52	45	6	2	45	1.42
1861511--1861608	30	3.2	31	80	9	103	44	10	2	42	1.49
1865055--1865098	21	2.2	20	84	12	54	75	2	0	22	0.92
1865192--1865351	25	6.8	25	68	21	107	27	21	6	44	1.77
1865310--1865414	43	2.4	44	84	9	126	25	20	9	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1865374--1865409	5	7.2	5	90	0	54	19	22	13	44	1.86
1865873--1866114	124	2.0	124	86	0	340	33	33	17	16	1.92
1866554--1866583	6	4.8	6	92	8	51	86	0	0	13	0.57
1866554--1866583	13	2.4	12	94	5	51	86	0	0	13	0.57
1867212--1867243	16	2.0	16	93	0	55	78	3	0	18	0.89
1868057--1868100	11	4.0	11	88	8	63	18	9	15	56	1.65
1870011--1870116	32	3.4	32	71	10	92	31	12	20	35	1.90
1872237--1872262	13	2.0	13	100	0	52	30	15	15	38	1.88
1874782--1874846	13	5.0	13	94	0	112	35	15	18	30	1.92
1874782--1874845	26	2.5	26	100	0	128	34	15	18	31	1.93
1874832--1874910	20	3.7	20	75	18	70	45	15	13	25	1.83
1876925--1876955	15	2.1	15	93	0	53	12	22	16	48	1.80
1878758--1878802	21	2.1	21	84	8	56	22	20	4	53	1.63
1881021--1881046	13	2.0	13	100	0	52	30	15	15	38	1.88
1881966--1882141	92	1.9	92	83	2	228	33	11	10	43	1.76
1885221--1885272	21	2.7	18	81	16	68	36	5	1	55	1.35
1885181--1885244	31	2.1	31	82	5	76	42	1	0	56	1.09
1885600--1885652	18	2.9	18	80	20	65	52	5	0	41	1.25
1885611--1885649	21	2.0	20	90	10	62	51	5	0	43	1.24
1885859--1885900	21	2.0	21	86	13	61	50	0	0	50	1.00
1885848--1885902	21	2.7	20	78	18	60	45	0	0	54	0.99
1886134--1886246	17	6.5	17	68	17	72	45	3	0	51	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1886186--1886284	36	2.9	34	85	10	114	42	2	0	55	1.11
1886184--1886284	33	3.0	32	78	18	100	41	1	0	56	1.10
1886281--1886388	17	6.3	17	64	18	53	37	0	0	61	1.09
1886247--1886423	80	2.2	82	80	8	193	36	0	1	62	1.07
1886355--1886432	21	3.8	21	75	11	72	32	0	1	66	1.00
1886385--1886432	20	2.3	21	85	3	62	29	0	2	68	1.01
1887279--1887307	2	14.5	2	100	0	58	48	0	0	51	1.00
1887590--1887635	18	2.6	17	76	6	56	63	0	2	34	1.07
1887730--1887769	20	2.0	20	95	0	71	62	0	2	35	1.09
1887978--1888053	11	6.9	11	72	19	52	50	1	1	47	1.18
1894486--1894533	2	24.0	2	100	0	96	50	0	0	50	1.00
1901252--1901533	139	2.0	140	92	0	467	34	12	13	40	1.82
1903538--1903564	2	13.5	2	100	0	54	51	0	0	48	1.00
1904711--1904803	47	2.0	47	82	13	115	51	1	2	45	1.20
1904779--1904844	28	2.3	29	75	19	66	59	3	0	37	1.13
1908889--1908914	13	2.0	13	100	0	52	38	15	15	30	1.88
1918245--1918271	13	2.1	13	100	0	54	29	14	14	40	1.86
1918255--1918312	19	2.9	19	87	5	80	32	15	17	34	1.91
1918342--1918394	20	2.7	20	90	0	79	39	13	16	30	1.87
1924516--1924544	13	2.2	13	100	0	58	27	13	17	41	1.87
1926393--1926428	19	1.9	19	88	5	56	58	0	30	11	1.33
1926418--1926470	19	2.9	18	72	5	61	39	1	24	33	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1926997--1927061	32	2.0	33	87	3	96	27	16	15	40	1.89
1927113--1927177	33	2.0	33	87	6	96	40	12	18	29	1.87
1933260--1933292	16	2.1	16	94	5	59	51	0	0	48	1.00
1933474--1933516	16	2.5	17	81	11	52	44	0	0	55	0.99
1933629--1933680	19	2.5	21	81	9	63	32	5	5	55	1.47
1933647--1933690	19	2.3	20	76	11	56	45	4	4	45	1.44
1933630--1933692	22	3.2	20	76	14	60	38	4	6	50	1.49
1935896--1935933	17	2.2	17	90	0	58	52	0	0	47	1.00
1936368--1936392	8	3.1	8	100	0	50	88	0	0	12	0.53
1937525--1937584	25	2.4	25	80	5	68	46	0	1	51	1.10
1937655--1937737	36	2.3	37	80	2	96	30	4	21	43	1.73
1937833--1937886	15	3.7	15	76	13	51	38	1	0	59	1.08
1938422--1938454	6	5.5	6	100	0	66	84	0	15	0	0.61
1940719--1941154	241	1.8	243	83	4	585	33	15	17	33	1.92
1948959--1949000	11	3.8	11	78	9	50	35	0	4	59	1.19
1953273--1953359	36	2.5	35	87	5	122	50	11	6	31	1.65
1956920--1958234	155	8.4	155	78	7	1031	38	21	17	22	1.93
1956984--1958209	312	3.9	308	79	6	1180	38	22	17	22	1.94
1957054--1958264	467	2.6	463	82	5	1422	38	21	17	22	1.93
1960738--1961205	166	2.9	164	81	6	538	52	8	11	27	1.66
1962386--1962717	168	2.0	167	82	1	405	43	11	24	19	1.85
1962836--1962935	43	2.3	43	83	6	123	33	16	30	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1963002--1963119	43	2.7	44	77	11	109	28	17	30	22	1.97
1963239--1963321	42	2.0	42	83	4	105	32	16	31	19	1.94
1963381--1963489	43	2.5	43	82	2	121	33	16	25	24	1.96
1963636--1963749	41	2.7	42	78	6	106	32	18	26	22	1.97
1963470--1963880	42	9.7	42	74	8	235	32	19	26	21	1.97
1963850--1964430	43	13.5	43	82	2	612	33	19	29	17	1.95
1964516--1964624	42	2.6	42	82	2	112	39	22	26	11	1.88
1964527--1964635	42	2.6	42	79	5	105	36	23	25	13	1.92
1964909--1965113	42	4.9	42	80	4	189	37	17	27	17	1.93
1965320--1965435	48	2.4	48	88	0	160	41	16	24	18	1.90

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