genome.fa.s21.2.7.7.80.10.50.1000.12.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: Scaffold21
Parameters: 2 7 7 80 10 50 1000
Length:  2821038

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  12  of  15  ( 1753 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)
1821310--1821349	2	20.0	2	94	0	71	50	2	0	47	1.14
1822553--1822616	25	2.5	26	78	14	78	56	1	0	42	1.09
1822551--1822615	11	5.7	11	72	18	53	56	1	0	41	1.08
1823551--1823609	28	2.2	25	83	16	75	50	1	1	45	1.21
1825275--1825318	20	2.2	20	84	8	54	36	2	0	61	1.09
1825332--1825377	6	7.8	6	76	13	51	67	0	0	32	0.91
1825390--1825425	19	1.9	19	88	5	56	50	5	0	44	1.25
1825415--1825459	15	2.9	15	80	6	54	42	0	0	57	0.98
1825808--1825833	2	13.0	2	100	0	52	50	0	0	50	1.00
1826557--1826616	8	7.2	8	77	22	54	36	0	0	63	0.95
1826679--1826720	20	2.0	21	86	4	59	45	4	0	50	1.23
1826740--1826819	32	2.8	27	74	20	81	52	0	1	46	1.08
1829663--1829695	3	11.0	3	100	0	66	66	0	0	33	0.92
1833064--1833099	18	1.9	19	88	5	56	36	2	0	61	1.11
1833109--1833153	17	2.6	17	100	0	90	42	0	0	57	0.98
1833189--1833223	18	2.0	18	88	5	54	54	2	0	42	1.15
1846292--1846326	2	18.0	2	94	5	63	48	0	0	51	1.00
1846475--1846505	14	2.2	14	94	0	53	48	0	6	45	1.28
1852816--1852856	18	2.2	19	91	8	66	58	0	0	41	0.98
1852802--1852856	20	2.8	20	86	10	69	52	0	0	47	1.00
1852825--1852863	19	2.1	19	85	9	53	53	0	0	46	1.00
1852801--1852864	17	3.3	19	78	10	51	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1853576--1853618	16	2.6	16	85	7	50	32	2	0	65	1.06
1864949--1864980	6	5.3	6	100	0	64	53	31	15	0	1.43
1868481--1868531	13	4.1	12	73	16	50	52	0	0	47	1.00
1873383--1873428	22	2.1	22	100	0	92	26	0	17	56	1.41
1873744--1873797	16	3.4	16	82	10	74	53	14	5	25	1.63
1874518--1874638	53	2.3	53	84	2	154	37	19	13	29	1.90
1875985--1876026	2	21.0	2	90	0	66	54	0	0	45	0.99
1888684--1888730	16	2.9	16	78	12	60	46	0	0	53	1.00
1893445--1893605	84	1.9	83	85	1	223	42	7	4	44	1.54
1895184--1895217	2	17.0	2	100	0	68	50	0	0	50	1.00
1895747--1895779	15	2.2	15	89	10	50	48	0	0	51	1.00
1895713--1895896	91	2.0	91	94	0	323	47	3	2	46	1.33
1897298--1897365	25	2.8	25	74	10	63	54	0	1	44	1.09
1897368--1897405	20	1.9	20	88	0	58	36	0	0	63	0.95
1897725--1897769	2	22.5	2	100	0	90	51	0	0	48	1.00
1897834--1897934	8	11.1	8	69	26	51	57	0	0	41	1.05
1897821--1897928	55	1.9	56	83	9	141	57	0	0	41	1.05
1897822--1897935	19	6.0	19	71	23	73	57	0	0	42	1.05
1901441--1901601	39	4.1	39	89	0	223	49	8	36	6	1.59
1905651--1905690	19	2.2	18	90	4	62	70	0	2	27	1.01
1906268--1906318	26	2.0	26	100	0	102	56	0	3	39	1.18
1912040--1912105	31	2.2	31	94	2	116	45	9	15	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1914178--1914210	15	2.2	15	94	0	57	36	0	12	51	1.39
1914218--1914351	16	8.3	16	75	5	74	30	3	13	52	1.58
1915389--1915474	16	5.4	16	85	0	100	20	16	20	41	1.90
1920219--1920283	27	2.4	28	75	17	73	58	0	0	41	0.98
1920336--1920366	15	2.1	15	100	0	62	54	19	6	19	1.65
1922810--1922993	90	2.0	90	94	0	323	26	20	22	30	1.98
1930562--1930623	30	2.1	29	84	3	79	53	1	1	43	1.20
1938216--1938251	17	2.1	17	89	0	54	83	0	16	0	0.65
1945010--1945035	13	2.0	13	100	0	52	84	15	0	0	0.62
1946087--1946933	27	31.0	27	89	4	1220	23	33	14	28	1.94
1946916--1947356	32	13.8	32	92	2	701	30	33	18	16	1.94
1948595--1948630	17	2.1	17	89	0	54	83	0	16	0	0.65
1955351--1955387	2	18.5	2	100	0	74	51	0	0	48	1.00
1956420--1956467	19	2.6	19	77	9	55	33	0	2	64	1.05
1956438--1956520	24	3.4	24	75	11	80	37	1	0	61	1.04
1956438--1956498	23	2.5	24	84	10	72	36	1	0	62	1.05
1956438--1956498	26	2.5	25	82	10	72	36	1	0	62	1.05
1956438--1956522	30	3.0	30	73	20	76	38	1	0	60	1.05
1961037--1961075	14	2.8	13	84	7	51	51	2	0	46	1.14
1970947--1970996	20	2.8	18	76	14	50	38	0	2	60	1.09
1971046--1971114	24	2.9	24	79	12	79	47	4	2	44	1.37
1971157--1971200	8	5.1	8	84	15	61	61	2	0	36	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1971762--1971809	17	2.7	18	84	12	64	39	0	4	56	1.19
1977389--1977607	116	1.9	116	87	3	325	53	4	6	35	1.47
1977413--1977575	39	4.1	41	62	24	98	55	3	6	34	1.42
1982308--1982380	36	2.0	36	100	0	146	26	19	16	38	1.92
1985351--1985402	26	2.0	27	85	11	72	36	0	0	63	0.95
1985331--1985408	21	4.3	17	73	20	68	37	0	1	61	1.04
1986091--1986120	2	15.0	2	92	0	51	46	0	3	50	1.18
1990814--1990844	2	15.5	2	100	0	62	48	0	0	51	1.00
1990826--1990937	55	2.0	55	100	0	224	40	3	5	50	1.42
1991930--1991967	2	19.0	2	88	0	58	44	0	2	52	1.14
1992538--1992588	26	2.0	26	88	7	77	45	1	1	50	1.24
1992538--1992586	25	1.9	26	84	12	66	44	2	2	51	1.24
1992548--1992602	26	2.2	26	83	3	67	54	1	0	43	1.10
2002088--2002152	30	2.1	31	83	13	82	40	0	1	58	1.07
2002616--2002657	2	21.0	2	100	0	84	50	0	0	50	1.00
2006635--2006671	2	18.5	2	100	0	74	0	48	0	51	1.00
2016036--2016078	18	2.3	19	80	15	54	65	0	0	34	0.93
2017003--2017033	15	2.1	15	93	0	53	48	9	6	35	1.62
2018089--2018132	21	2.2	19	84	8	52	45	2	0	52	1.13
2018329--2018389	31	1.9	32	96	3	115	70	0	0	29	0.88
2018322--2018390	17	4.2	17	77	22	76	71	0	0	28	0.87
2019213--2019237	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2019416--2019448	2	16.5	2	100	0	66	48	0	0	51	1.00
2021389--2021415	4	6.8	4	100	0	54	0	22	0	77	0.76
2021529--2021555	3	9.0	3	100	0	54	66	0	0	33	0.92
2021819--2021861	19	2.3	19	88	8	61	81	0	4	13	0.84
2022106--2022162	21	2.5	23	73	21	57	49	0	0	50	1.00
2022107--2022162	23	2.5	22	83	13	69	48	0	0	51	1.00
2022156--2022198	18	2.4	18	80	0	50	48	0	2	48	1.14
2024646--2024711	22	3.1	22	75	18	68	46	0	0	53	1.00
2025041--2025093	23	2.2	24	83	3	72	52	0	0	47	1.00
2025378--2025402	2	12.5	2	100	0	50	52	0	0	48	1.00
2027463--2027492	3	10.0	3	100	0	60	66	0	0	33	0.92
2028082--2028183	25	4.1	24	71	17	66	46	0	0	53	1.00
2028108--2028183	26	3.0	25	74	16	68	48	0	0	51	1.00
2031266--2031319	23	2.3	23	96	0	99	29	24	12	33	1.92
2040158--2040197	18	2.2	18	86	8	55	40	0	2	57	1.12
2041946--2041972	2	13.5	2	100	0	54	48	0	0	51	1.00
2045737--2045777	21	1.9	22	85	5	57	68	0	2	29	1.03
2045734--2045783	18	2.8	18	79	11	66	70	0	2	28	0.99
2047028--2047068	16	2.5	17	84	11	59	56	2	2	39	1.26
2049654--2049708	2	27.5	2	100	0	110	0	50	0	49	1.00
2058239--2058272	17	2.0	17	94	0	59	67	8	5	17	1.37
2060472--2060506	18	2.1	16	89	10	52	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2060621--2061230	324	1.9	329	85	5	869	45	5	2	47	1.39
2061102--2061162	11	5.4	11	77	12	52	36	0	1	62	1.05
2060621--2061247	163	3.9	161	84	6	781	44	5	2	47	1.39
2061115--2061193	24	3.3	24	78	16	83	43	0	2	54	1.14
2061658--2061701	21	2.1	21	83	8	54	54	0	6	38	1.27
2062308--2062349	21	1.9	23	90	9	70	64	4	0	30	1.14
2063752--2063779	2	14.0	2	100	0	56	50	0	0	50	1.00
2067430--2067474	16	2.8	16	82	0	63	53	6	2	37	1.40
2072849--2072882	2	17.0	2	100	0	68	50	0	0	50	1.00
2077133--2077172	2	20.5	2	94	5	73	50	0	50	0	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15