genome.fa.s71.2.7.7.80.10.50.1000.13.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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  13  of  33  ( 3929 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)
1937452--1937545	41	2.3	41	100	0	188	29	19	12	38	1.89
1942413--1942461	18	2.7	18	80	0	53	26	30	18	24	1.98
1943013--1943046	15	2.3	15	90	10	52	32	0	20	47	1.51
1942979--1943046	24	2.9	23	78	6	64	32	2	19	45	1.65
1944281--1944338	24	2.4	24	85	0	71	25	22	12	39	1.89
1946551--1946609	19	3.1	19	78	9	66	50	0	0	49	1.00
1946620--1946668	3	17.0	3	87	8	75	34	0	0	65	0.93
1947046--1947114	11	6.5	11	74	14	56	36	0	4	59	1.17
1947079--1947115	18	2.0	19	85	15	51	35	0	0	64	0.94
1947863--1947904	20	2.1	20	86	8	59	50	0	0	50	1.00
1947950--1947997	25	2.0	25	87	4	71	18	2	6	72	1.15
1949016--1949044	2	15.0	2	92	7	51	48	0	0	51	1.00
1952165--1952194	2	15.0	2	92	0	51	46	0	0	53	1.00
1953070--1953120	22	2.3	22	83	6	59	41	1	0	56	1.10
1954312--1954677	183	2.0	183	97	0	687	46	12	4	35	1.64
1955730--1955880	30	5.1	30	71	14	93	39	7	0	52	1.34
1955933--1955983	25	2.0	25	85	14	70	64	1	0	33	1.05
1957813--1957839	13	2.1	13	100	0	54	40	14	7	37	1.74
1959610--1959674	30	2.2	31	83	10	91	41	7	13	36	1.74
1961186--1961217	2	16.0	2	100	0	64	50	0	0	50	1.00
1969855--1969897	17	2.6	17	85	3	61	30	2	0	67	1.03
1969960--1970030	28	2.5	29	77	11	85	26	2	7	63	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1969973--1970012	17	2.4	16	88	8	62	35	0	0	65	0.93
1971168--1971209	22	1.9	22	100	0	84	14	28	2	54	1.52
1971170--1971219	22	2.2	22	85	7	64	18	26	2	54	1.54
1971707--1971778	20	3.4	21	86	5	83	45	6	13	33	1.71
1971921--1971972	20	2.6	20	87	0	77	36	13	9	40	1.77
1976287--1976650	58	6.3	57	73	9	256	44	13	12	29	1.80
1976287--1976786	58	8.6	57	72	12	222	47	13	11	28	1.76
1977778--1977848	20	3.5	20	77	12	74	39	15	15	29	1.88
1980782--1980959	52	3.4	52	85	5	207	33	10	24	31	1.90
1980825--1981005	52	3.5	52	82	8	158	34	12	24	28	1.92
1981020--1981142	51	2.4	51	84	5	158	34	10	22	32	1.89
1983488--1983542	20	2.8	20	82	0	74	45	16	14	23	1.84
1983584--1983639	13	3.9	13	79	20	67	33	16	14	35	1.88
1983565--1983658	32	3.0	31	95	3	161	36	14	12	36	1.85
1983680--1983819	21	6.7	21	95	1	237	37	20	10	32	1.87
1985998--1986034	2	18.5	2	100	0	74	0	51	0	48	1.00
1990427--1990481	16	3.4	16	78	9	67	14	30	0	54	1.41
1995273--1995354	37	2.3	37	77	14	91	51	0	0	48	1.00
1997267--1997363	37	2.6	38	79	12	112	50	3	5	41	1.40
1998312--1998352	21	1.9	22	90	5	66	65	2	26	4	1.25
2007287--2007320	2	17.5	2	90	6	52	52	0	0	47	1.00
2008437--2008477	21	2.0	21	85	9	57	39	0	0	60	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2008906--2008952	12	3.3	14	83	16	53	40	2	0	57	1.11
2009345--2009398	25	2.2	25	83	9	67	46	5	0	48	1.25
2010887--2010923	14	2.4	16	78	21	51	35	0	2	62	1.10
2010893--2010922	14	2.1	14	100	0	60	40	0	0	60	0.97
2017820--2017873	26	2.0	27	85	7	74	40	0	1	57	1.09
2017830--2017869	17	2.4	17	79	4	55	37	0	0	62	0.95
2022112--2022160	22	2.2	23	89	10	75	4	20	20	55	1.60
2022162--2022199	2	19.0	2	100	0	76	50	0	0	50	1.00
2022334--2022437	30	3.8	29	76	19	123	5	17	34	42	1.73
2022300--2022446	52	2.8	52	90	0	240	6	17	33	42	1.74
2022366--2022407	22	1.9	22	95	0	75	4	14	35	45	1.66
2022978--2023033	14	3.7	14	72	23	51	19	1	3	75	1.05
2022965--2023009	23	2.0	23	87	8	67	20	0	4	75	0.97
2022978--2023043	31	2.1	32	86	11	91	19	1	4	74	1.07
2024709--2024759	9	5.9	9	77	9	52	64	5	0	29	1.17
2025070--2025118	12	3.6	14	81	13	59	63	0	0	36	0.95
2025072--2025223	7	20.4	7	71	20	53	59	1	0	38	1.10
2025128--2025171	23	2.0	22	86	4	61	56	0	0	43	0.99
2025078--2025227	14	10.0	14	67	23	67	60	1	0	38	1.10
2025088--2025223	22	6.1	22	68	20	61	60	1	0	37	1.11
2026752--2026821	23	3.0	23	97	0	131	22	4	27	45	1.71
2033227--2033266	19	2.2	18	95	4	71	65	0	0	35	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2033645--2033952	153	2.0	151	80	7	347	42	12	10	34	1.76
2036438--2036466	2	14.5	2	100	0	58	48	0	0	51	1.00
2044852--2044878	2	13.5	2	100	0	54	48	0	0	51	1.00
2048753--2048799	22	2.2	21	84	3	58	31	0	0	68	0.90
2048759--2048800	21	2.0	22	90	4	68	30	0	0	69	0.89
2049325--2049355	2	15.5	2	100	0	62	48	0	0	51	1.00
2051822--2051854	2	17.0	2	87	6	50	45	0	0	54	0.99
2051825--2051854	15	2.0	15	93	0	51	43	0	0	56	0.99
2052270--2052307	18	2.2	18	85	4	51	31	0	5	63	1.17
2052278--2052332	25	2.2	25	77	6	58	38	0	3	58	1.16
2053963--2053998	2	18.0	2	100	0	72	50	0	0	50	1.00
2055534--2055567	2	17.0	2	100	0	68	50	0	0	50	1.00
2057200--2057240	15	2.8	15	79	13	50	51	4	0	43	1.23
2057186--2057251	18	3.5	19	76	13	66	50	3	0	46	1.16
2057351--2057376	13	2.0	13	100	0	52	53	0	0	46	1.00
2057656--2057698	20	2.0	20	86	8	59	74	9	6	9	1.22
2058146--2058183	3	12.7	3	100	0	76	68	0	0	31	0.90
2058513--2058542	2	15.0	2	100	0	60	50	0	0	50	1.00
2059392--2059439	10	4.7	10	78	12	53	64	2	0	33	1.05
2059867--2059939	7	10.9	7	75	21	50	47	0	1	50	1.09
2059858--2059936	35	2.2	36	82	6	90	48	0	2	49	1.14
2059869--2059951	6	13.8	6	77	15	57	50	0	1	48	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2059916--2059988	23	3.3	23	68	21	57	52	1	1	45	1.18
2060005--2060046	21	2.0	21	86	4	59	45	0	2	52	1.13
2060141--2060202	30	2.1	30	82	11	74	46	3	1	48	1.28
2061452--2061484	3	11.0	3	100	0	66	33	0	0	66	0.92
2061822--2061857	2	18.0	2	100	0	72	50	0	50	0	1.00
2062344--2062391	21	2.2	23	78	14	57	4	2	27	66	1.21
2064912--2064946	18	1.9	18	88	0	52	40	17	14	28	1.88
2069851--2069977	14	8.6	14	69	24	66	56	0	0	42	1.04
2069858--2069907	18	3.0	18	73	26	56	56	0	0	44	0.99
2069851--2069936	33	2.7	32	80	10	104	55	0	0	44	0.99
2070659--2070704	20	2.4	19	89	7	67	71	0	0	28	0.86
2070815--2070848	3	11.3	3	100	0	68	32	0	0	67	0.91
2071025--2071054	2	15.0	2	100	0	60	50	0	0	50	1.00
2071110--2071161	3	17.3	3	91	0	86	63	0	3	32	1.12
2077531--2077564	16	2.1	16	100	0	68	64	11	5	17	1.45
2078205--2078271	32	2.1	32	97	0	125	19	20	20	38	1.93
2078851--2078901	21	2.5	20	75	9	50	41	1	1	54	1.22
2083501--2083540	15	2.7	15	84	11	55	62	0	0	37	0.95
2085825--2085895	29	2.6	27	77	4	70	28	1	7	63	1.29
2086642--2086670	2	14.5	2	100	0	58	51	0	0	48	1.00
2093154--2093180	13	2.1	13	100	0	54	40	0	7	51	1.30
2099666--2099703	20	1.9	20	88	0	58	47	0	2	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2100298--2100344	20	2.3	20	88	0	67	51	6	0	42	1.27
2102773--2102863	36	2.6	36	79	8	89	53	0	0	46	1.00
2102793--2102862	36	2.0	36	83	8	90	54	0	0	45	0.99
2102882--2102913	15	2.1	16	88	11	50	56	9	3	31	1.47
2103333--2103364	16	2.0	16	93	0	55	50	3	0	46	1.17
2105569--2105605	2	18.5	2	100	0	74	51	0	0	48	1.00
2105732--2105764	15	2.2	15	94	0	57	30	3	0	66	1.06
2109421--2109482	28	2.2	29	80	13	76	58	3	0	38	1.15
2115474--2115507	17	2.0	17	88	0	50	61	0	2	35	1.11
2115474--2115522	22	2.2	22	78	7	55	61	0	2	36	1.08

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