genome.fa.s105.2.7.7.80.10.50.1000.12.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  12  of  16  ( 1849 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)
1827492--1827586	19	5.6	18	73	18	71	21	1	3	74	1.01
1827492--1827561	26	2.8	24	79	10	77	20	1	2	75	1.00
1828685--1828756	26	2.7	26	80	2	81	25	2	22	50	1.63
1833251--1833340	27	3.5	25	77	8	92	23	6	22	47	1.74
1833254--1833323	26	2.6	27	84	2	88	22	5	22	48	1.72
1833402--1833446	13	3.5	13	81	6	56	15	42	6	35	1.73
1833992--1834158	82	2.0	82	82	4	203	42	10	14	32	1.79
1834133--1834219	40	2.2	40	83	6	106	39	9	12	39	1.75
1837208--1837258	20	2.6	18	80	17	57	70	9	0	19	1.14
1837283--1837334	24	2.2	24	83	13	63	55	15	3	25	1.57
1837483--1837519	19	2.0	18	89	5	56	67	0	27	5	1.12
1838116--1838190	34	2.2	32	79	9	78	44	0	0	56	0.99
1838430--1838493	33	1.9	33	84	6	85	26	1	6	65	1.25
1838488--1838566	9	8.4	9	75	10	52	18	1	2	77	0.96
1838474--1838572	8	11.4	8	76	14	63	20	1	2	76	0.94
1838466--1838554	35	2.6	34	82	7	90	21	1	1	76	0.92
1838471--1838572	44	2.3	45	86	11	149	20	0	1	76	0.94
1839741--1839807	18	3.9	17	73	11	57	61	0	2	35	1.12
1839732--1839807	16	4.6	17	71	20	54	61	0	2	35	1.10
1839754--1839821	32	2.0	35	86	8	97	57	0	4	38	1.19
1841041--1841071	2	15.5	2	100	0	62	48	0	0	51	1.00
1841861--1841904	21	2.0	22	87	12	65	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1841892--1841945	20	2.7	19	71	5	54	57	0	0	42	0.98
1842171--1842201	5	6.2	5	92	0	53	61	3	0	35	1.12
1843635--1843688	17	3.4	17	69	21	53	53	3	1	40	1.29
1849044--1849303	137	1.9	136	86	5	371	23	8	13	55	1.66
1850343--1850408	30	2.2	30	81	10	80	53	6	6	34	1.51
1850341--1850409	31	2.2	31	84	5	86	52	5	5	36	1.50
1850984--1851021	20	1.9	20	84	10	51	47	0	0	52	1.00
1851196--1851244	18	2.7	18	80	0	62	32	4	6	57	1.42
1856625--1856663	19	2.1	19	85	9	53	33	0	0	66	0.92
1856635--1856701	23	2.8	24	75	9	64	40	0	1	58	1.07
1856668--1856714	16	3.0	15	80	17	51	51	0	2	46	1.13
1857433--1857476	17	2.6	16	79	10	52	56	4	2	36	1.32
1872407--1872439	16	2.1	17	88	11	52	42	0	0	57	0.98
1872406--1872451	15	3.1	14	81	6	56	50	0	0	50	1.00
1873348--1873376	2	14.5	2	100	0	58	0	51	0	48	1.00
1879923--1879975	14	3.7	14	78	16	56	52	0	0	47	1.00
1879878--1879998	59	2.0	60	80	12	133	49	0	0	49	1.06
1879923--1879976	30	1.9	30	85	14	80	51	0	0	48	1.00
1881098--1881165	30	2.3	29	85	7	91	48	0	1	50	1.10
1881160--1881184	13	1.9	13	100	0	50	72	4	0	24	1.02
1881290--1881332	19	2.3	18	84	4	50	74	2	0	23	0.93
1881724--1881757	3	11.3	3	100	0	68	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882388--1882427	2	20.0	2	100	0	80	50	0	0	50	1.00
1897309--1897339	2	15.5	2	100	0	62	48	0	0	51	1.00
1899257--1899308	13	4.1	13	78	9	54	51	1	0	46	1.12
1899260--1899312	25	2.2	24	83	12	72	52	1	0	45	1.11
1899266--1899327	25	2.5	24	79	10	70	51	4	0	43	1.23
1903929--1903954	3	8.7	3	100	0	52	69	0	0	30	0.89
1904259--1904290	2	16.0	2	100	0	64	50	0	0	50	1.00
1904467--1904525	15	3.8	15	73	18	50	66	0	0	33	0.92
1906662--1906696	2	17.5	2	93	0	52	51	0	5	42	1.25
1911356--1911400	22	2.1	22	95	4	83	37	13	2	46	1.55
1914075--1914118	16	2.7	17	79	6	56	75	0	0	25	0.81
1914152--1914216	20	3.2	20	78	12	78	52	0	0	47	1.00
1914152--1914216	21	3.2	20	77	14	69	52	0	0	47	1.00
1914152--1914237	40	2.1	42	82	8	106	54	1	0	44	1.07
1919726--1919785	6	10.3	6	73	5	52	51	3	1	43	1.28
1923609--1923660	16	3.2	16	81	7	61	30	0	9	59	1.29
1925675--1925705	6	5.2	6	92	0	53	12	3	0	83	0.75
1929687--1929817	64	2.0	64	100	0	262	39	15	16	28	1.89
1929890--1929928	2	19.5	2	94	0	69	0	48	0	51	1.00
1938180--1938230	2	25.5	2	100	0	102	49	0	0	50	1.00
1939949--1939979	2	15.5	2	100	0	62	48	0	51	0	1.00
1946654--1946688	18	1.9	18	88	0	52	54	0	2	42	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1949560--1949602	21	2.1	20	86	4	59	51	0	0	48	1.00
1954933--1954962	15	2.0	15	93	0	51	23	0	0	76	0.78
1955878--1955912	18	2.1	18	89	10	56	20	2	0	77	0.90
1957560--1958282	245	3.0	244	82	3	812	35	13	13	38	1.84
1960501--1960525	7	3.6	7	100	0	50	72	0	0	28	0.86
1961715--1961747	13	2.3	15	90	10	52	66	3	0	30	1.06
1963773--1963797	7	3.6	7	100	0	50	56	0	16	28	1.41
1965326--1965471	69	2.1	69	94	0	256	30	27	8	32	1.87
1969393--1969434	6	7.0	6	88	0	57	64	0	4	30	1.14
1969393--1969440	18	2.7	18	80	0	60	66	2	4	27	1.21
1969448--1969515	35	1.9	35	93	0	118	42	16	2	38	1.63
1970766--1970804	20	1.9	20	85	15	53	38	0	0	61	0.96
1977756--1977818	22	3.0	22	93	4	103	50	11	0	38	1.38
1977754--1977818	4	16.2	4	90	0	67	50	10	0	38	1.37
1977754--1977814	18	3.3	18	91	8	104	50	11	0	37	1.39
1978295--1978513	34	6.5	33	85	4	276	25	7	26	40	1.82
1978295--1978511	102	2.1	101	89	1	335	25	7	26	40	1.82
1982923--1983143	34	6.5	33	85	4	280	25	7	26	40	1.82
1982923--1983141	102	2.2	101	89	1	339	25	7	26	40	1.82
1984016--1984173	50	3.2	50	95	0	271	29	18	21	30	1.97
1984016--1984203	50	3.8	50	92	0	268	30	17	22	29	1.96
1986317--1986552	50	4.7	50	90	1	375	30	17	22	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1987070--1987109	20	2.0	21	85	5	55	25	0	5	70	1.08
1988115--1988171	30	1.9	30	82	13	73	52	3	1	42	1.28
1989272--1989320	15	3.3	14	81	13	53	42	2	2	53	1.24
1989345--1989679	50	6.7	50	84	1	402	34	15	17	32	1.91
1989345--1989679	150	2.2	150	86	1	447	34	15	17	32	1.91
1990295--1990338	24	2.0	23	86	13	65	65	9	2	22	1.32
1991049--1991087	2	19.5	2	100	0	78	48	0	0	51	1.00
1991174--1991250	29	2.8	27	75	9	84	50	0	0	49	1.00
1991172--1991263	28	3.4	27	73	15	82	46	0	0	53	1.00
1991398--1991425	2	14.0	2	100	0	56	50	0	0	50	1.00
1991837--1991895	2	29.5	2	100	0	118	49	0	0	50	1.00
1998865--1998891	3	9.0	3	100	0	54	66	0	0	33	0.92
1998908--1998934	13	2.1	13	100	0	54	25	0	0	74	0.83
1999096--1999147	19	2.5	21	72	18	54	69	1	1	26	1.10
1999112--1999150	19	2.1	18	90	4	60	66	0	0	33	0.92
1999238--1999270	17	2.1	17	88	11	52	33	12	0	54	1.37
2003910--2003957	23	2.0	26	84	12	66	41	4	12	41	1.62
2007878--2008095	34	6.5	34	85	5	282	40	27	7	24	1.82
2007876--2008095	67	3.3	67	88	1	323	40	27	7	24	1.82
2012506--2012722	34	6.4	34	85	5	280	40	27	7	24	1.82
2012504--2012722	67	3.3	67	88	1	321	40	27	7	24	1.82
2013778--2013923	69	2.1	69	94	0	256	30	26	8	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2021067--2021117	22	2.3	23	83	6	61	45	0	0	54	0.99
2024724--2024761	17	2.4	16	86	8	51	23	0	2	73	0.95
2025109--2025291	34	5.4	34	87	1	253	26	7	26	39	1.83
2025596--2025658	19	3.3	19	90	0	90	28	17	19	34	1.94
2029724--2029908	34	5.5	34	86	1	248	26	7	25	40	1.81
2031824--2031853	2	15.0	2	100	0	60	50	0	0	50	1.00
2034410--2034473	32	2.0	32	81	6	76	56	1	3	39	1.25
2034408--2034489	32	2.9	27	73	16	65	53	1	3	41	1.26
2034758--2034797	11	3.6	11	86	0	53	70	5	0	25	1.08
2034782--2034829	12	4.3	11	84	7	53	75	2	0	22	0.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16