genome.fa.s8.2.7.7.80.10.50.1000.14.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   

This is table  14  of  33  ( 3942 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)
1882089--1882215	30	4.3	31	70	20	103	55	0	0	44	0.99
1882039--1882226	8	22.9	8	69	20	61	56	0	0	43	1.03
1889448--1889497	6	8.7	6	80	12	52	36	0	0	64	0.94
1889449--1889515	11	6.5	11	72	17	56	37	0	0	62	0.95
1889441--1889497	29	2.0	29	86	10	82	36	0	0	63	0.95
1889437--1889484	19	2.6	18	87	9	69	33	0	0	66	0.92
1889445--1889517	29	2.6	28	78	20	80	38	0	0	61	0.96
1899617--1899647	2	15.5	2	100	0	62	0	51	0	48	1.00
1903004--1903050	25	1.9	25	82	4	60	42	6	6	44	1.55
1903891--1903950	29	2.1	29	84	6	77	46	1	1	50	1.21
1906952--1907010	25	2.7	20	70	22	55	45	8	13	32	1.74
1906950--1907002	25	2.1	25	85	0	70	47	9	16	26	1.77
1907005--1907034	2	15.0	2	100	0	60	50	0	0	50	1.00
1911613--1911658	20	2.2	21	80	7	58	54	8	23	13	1.66
1914571--1914629	24	2.4	25	77	8	77	45	0	0	54	0.99
1918132--1918260	52	2.5	52	94	0	222	30	18	15	35	1.92
1918356--1918380	13	1.9	13	100	0	50	32	16	16	36	1.90
1918336--1918400	32	2.0	33	93	3	114	35	16	12	35	1.87
1918964--1919003	16	2.6	16	88	4	55	55	5	7	32	1.50
1922306--1922601	106	2.9	103	84	4	409	28	14	16	40	1.88
1929961--1930023	32	2.0	32	96	3	119	26	19	28	25	1.98
1931509--1931545	3	12.3	3	100	0	74	32	0	32	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1937820--1937859	3	13.3	3	94	0	71	67	2	0	30	1.04
1942351--1942422	30	2.3	31	85	9	101	44	8	0	47	1.33
1942357--1942420	30	2.1	31	91	2	103	45	9	0	45	1.36
1942568--1942617	21	2.5	20	84	12	66	50	0	2	48	1.12
1953293--1953329	2	18.5	2	100	0	74	48	0	0	51	1.00
1958991--1959051	30	2.1	29	87	9	88	50	0	0	49	1.00
1959546--1959604	13	4.3	12	78	21	55	49	0	0	50	1.00
1959934--1960000	32	2.1	31	83	2	80	40	8	0	50	1.34
1960078--1960104	2	13.5	2	100	0	54	51	0	0	48	1.00
1961699--1961735	17	2.2	18	85	9	51	51	0	0	48	1.00
1963576--1963631	28	2.0	28	83	13	71	51	1	0	46	1.11
1963662--1963716	27	2.0	28	89	3	85	56	0	0	43	0.99
1963670--1963713	21	2.2	20	88	12	63	56	0	0	43	0.99
1964339--1964387	19	2.6	19	83	3	64	71	0	0	28	0.86
1964536--1964610	9	7.9	9	72	15	53	61	0	0	38	0.96
1965186--1965397	61	3.5	60	91	3	320	41	3	10	44	1.57
1965495--1965556	29	2.2	27	80	8	70	54	6	3	35	1.42
1966560--1966593	5	6.6	5	89	3	50	85	0	14	0	0.60
1970910--1970934	12	2.1	12	100	0	50	92	8	0	0	0.40
1971380--1971422	1	43.0	1	92	0	68	2	95	0	2	0.32
1971370--1971421	8	6.0	9	91	6	65	7	90	0	1	0.53
1978640--1978671	3	10.7	3	100	0	64	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1978976--1979058	38	2.2	37	85	4	112	48	2	3	45	1.33
1979625--1979686	21	2.7	22	78	12	63	48	4	0	46	1.23
1981661--1981718	4	14.2	4	79	16	66	70	1	0	27	0.97
1981668--1981717	21	2.5	21	84	9	61	72	2	0	26	0.96
1981661--1981721	9	6.3	9	73	14	50	70	1	0	27	0.97
1981773--1981811	12	3.2	12	92	3	60	30	0	0	69	0.89
1982538--1982713	61	3.0	61	88	7	256	36	5	13	44	1.67
1983848--1983882	9	4.1	9	89	10	56	82	0	17	0	0.66
1988141--1988165	12	2.1	12	100	0	50	92	8	0	0	0.40
1994530--1994554	2	12.5	2	100	0	50	52	0	0	48	1.00
1996142--1996178	17	2.2	18	85	9	51	51	0	0	48	1.00
1998015--1998069	27	2.0	27	83	13	69	50	1	0	47	1.11
1998105--1998145	21	2.0	21	90	9	66	58	0	2	39	1.11
1998099--1998150	27	1.9	27	84	7	70	57	0	1	40	1.10
1999058--1999133	23	3.2	24	69	12	68	50	0	1	48	1.09
1999192--1999240	19	2.6	19	83	3	64	71	0	0	28	0.86
2000040--2000251	61	3.5	60	92	3	329	41	3	10	44	1.56
2000349--2000410	29	2.2	27	80	8	70	54	6	3	35	1.42
2005763--2005787	12	2.1	12	100	0	50	92	8	0	0	0.40
2013468--2013508	3	13.7	3	100	0	82	31	0	0	68	0.90
2013811--2013891	38	2.2	37	86	4	117	48	1	4	45	1.32
2014960--2014992	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2015055--2015120	34	1.9	34	82	11	82	54	0	0	45	0.99
2015073--2015120	24	1.9	25	91	8	80	54	0	0	45	0.99
2015078--2015119	15	2.6	17	78	21	54	57	0	0	42	0.99
2015148--2015210	32	2.1	30	82	8	74	53	0	3	42	1.16
2015179--2015232	24	2.3	24	77	3	65	57	0	0	42	0.98
2015185--2015245	14	5.0	12	73	23	56	55	0	0	44	0.99
2015184--2015245	25	2.5	24	79	10	63	56	0	0	43	0.99
2016294--2016360	23	3.0	23	75	14	68	49	0	0	50	1.00
2018414--2018455	19	2.3	19	84	15	61	45	0	0	54	0.99
2018983--2019030	2	24.0	2	91	0	78	47	2	0	50	1.12
2022891--2022966	28	2.8	28	78	9	68	32	1	1	64	1.10
2022916--2022970	27	2.0	28	89	3	85	27	0	0	72	0.85
2023114--2023148	18	1.9	18	94	0	61	22	0	2	74	0.95
2023292--2023410	37	3.1	38	70	20	104	46	0	0	52	1.06
2026737--2026777	2	20.5	2	100	0	82	48	0	0	51	1.00
2027488--2027528	14	2.9	15	85	7	50	51	0	0	48	1.00
2027513--2027577	20	3.4	19	73	10	62	47	0	1	50	1.10
2027470--2027592	39	3.1	38	75	12	97	51	0	0	47	1.12
2032583--2032627	23	1.9	24	86	4	65	53	0	0	46	1.00
2035790--2035832	4	10.8	4	100	0	86	25	0	23	51	1.49
2036856--2036906	10	5.0	10	77	17	52	31	0	1	66	1.03
2036871--2036916	21	2.1	22	88	11	69	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2037462--2037506	16	2.7	16	79	6	54	33	0	2	64	1.06
2037797--2037864	14	4.4	14	75	17	55	48	1	1	48	1.19
2037810--2037864	15	3.3	18	69	27	57	47	1	0	50	1.11
2037809--2037869	32	1.9	31	93	3	104	47	1	0	50	1.10
2037796--2037858	16	4.0	16	78	15	60	47	0	1	50	1.10
2037868--2037908	14	2.9	15	82	10	50	31	2	2	63	1.20
2038049--2038095	11	4.1	11	76	17	51	21	0	2	76	0.89
2038049--2038095	18	2.8	16	84	15	60	21	0	2	76	0.89
2038307--2038362	20	2.8	20	76	7	62	48	0	0	51	1.00
2045403--2045440	2	19.0	2	100	0	76	50	0	0	50	1.00
2047144--2047190	22	2.1	22	84	11	60	29	6	2	61	1.32
2050141--2050219	27	2.8	28	79	9	72	32	7	11	48	1.68
2054698--2054795	27	3.8	25	77	11	92	24	9	20	45	1.80
2054698--2054771	27	2.7	27	85	2	94	25	9	18	45	1.80
2059545--2059575	2	15.5	2	100	0	62	51	0	0	48	1.00
2069561--2069592	15	2.1	15	94	0	55	46	6	3	43	1.44
2070944--2070985	19	2.2	20	82	4	50	38	7	0	54	1.28
2073024--2073077	9	6.1	9	76	20	51	46	0	1	51	1.11
2073192--2073254	2	31.5	2	90	0	81	42	1	6	49	1.37
2074359--2074398	20	2.0	20	85	9	55	57	0	0	42	0.98
2074414--2074467	28	1.9	28	88	7	83	46	0	0	53	1.00
2074410--2074456	14	3.3	14	80	14	60	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2074414--2074466	14	3.9	13	79	13	54	45	0	0	54	0.99
2075061--2075121	20	3.2	19	79	9	61	31	1	0	67	1.01
2076469--2076510	20	2.0	21	86	4	59	40	0	0	59	0.97
2077189--2077228	3	13.3	3	100	0	80	32	0	0	67	0.91
2077517--2077560	20	2.4	18	85	11	54	47	0	0	52	1.00
2077518--2077612	33	2.9	32	78	3	100	47	1	0	51	1.07
2078090--2078138	23	2.1	23	82	17	57	61	0	0	38	0.96
2078120--2078179	22	2.7	22	79	5	59	63	5	0	31	1.16
2078133--2078206	27	2.9	26	72	20	66	60	5	0	33	1.19
2079640--2079682	19	2.2	20	84	8	54	27	0	0	72	0.85

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