genome.fa.s63.2.7.7.80.10.50.1000.14.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

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

This is table  14  of  16  ( 1834 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)
1968956--1969013	24	2.4	24	80	16	66	37	1	0	60	1.07
1969188--1969232	22	2.0	23	87	12	67	55	0	0	44	0.99
1969370--1969433	2	32.0	2	100	0	128	50	0	0	50	1.00
1969952--1969999	14	3.7	13	78	18	55	0	29	0	70	0.87
1969934--1969998	25	2.6	24	81	11	69	0	29	0	70	0.87
1970808--1970861	25	2.1	26	83	10	67	57	3	1	37	1.27
1971281--1971306	1	26.0	1	100	0	52	100	0	0	0	0.00
1971798--1971850	18	2.8	19	83	8	72	45	0	3	50	1.19
1971822--1971858	17	2.2	17	95	4	67	54	0	0	45	1.00
1971805--1971857	16	2.9	19	73	21	51	50	0	1	47	1.12
1971924--1971965	17	2.6	16	77	7	50	30	2	0	66	1.04
1972942--1973044	24	4.1	24	76	14	84	62	0	0	36	1.02
1975049--1975099	17	3.0	17	83	11	61	45	0	0	54	0.99
1976361--1976413	25	2.1	26	82	10	65	58	0	5	35	1.22
1977227--1977260	17	2.0	17	88	0	50	50	0	2	47	1.16
1978407--1978450	20	2.1	20	83	8	52	50	4	0	45	1.22
1979538--1979578	19	2.2	19	86	0	55	21	0	12	65	1.25
1979659--1979720	5	13.0	5	75	14	60	35	1	0	62	1.05
1979664--1979738	20	3.7	19	75	16	71	32	0	0	68	0.90
1979676--1979738	22	3.0	22	84	6	87	31	0	0	68	0.90
1980137--1980198	30	2.1	30	96	0	115	29	1	14	54	1.49
1983136--1983179	3	14.7	3	90	0	70	63	4	0	31	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983856--1983897	2	21.0	2	100	0	84	50	0	0	50	1.00
1986217--1986266	13	3.8	13	84	10	66	68	0	0	32	0.90
1986201--1986274	23	3.2	22	81	11	78	66	0	0	33	0.92
1986216--1986283	23	2.9	23	77	20	61	64	0	0	35	0.94
1986849--1986878	6	4.8	6	92	8	51	80	0	3	16	0.85
1987274--1987340	22	3.0	22	82	2	71	50	7	5	35	1.55
1987476--1987531	22	2.5	22	77	8	60	51	3	1	42	1.29
1987602--1987630	12	2.3	13	94	5	51	27	0	0	72	0.85
1988510--1988547	16	2.4	16	95	4	69	73	0	7	18	1.06
1988508--1988546	15	2.4	17	87	12	64	74	0	7	17	1.05
1989369--1989419	26	2.0	26	88	0	75	56	3	3	35	1.36
1990149--1990205	30	1.9	29	86	10	80	43	3	0	52	1.18
1990193--1990237	22	2.1	21	83	4	54	42	0	2	55	1.12
1990342--1990525	102	1.9	95	83	10	235	49	8	8	33	1.64
1990652--1990694	20	2.2	20	95	0	77	44	0	0	55	0.99
1990696--1990745	5	10.4	5	75	16	52	38	0	0	62	0.96
1990664--1990745	20	4.0	20	79	7	76	39	0	1	59	1.05
1993785--1993878	21	4.4	22	67	27	60	59	0	1	39	1.04
1993781--1993875	18	4.8	19	73	21	72	58	0	1	40	1.05
1993830--1993886	24	2.3	25	82	14	66	59	0	1	38	1.08
1994643--1994682	20	2.0	20	100	0	80	40	5	10	45	1.60
1999543--1999609	27	2.5	26	73	7	71	49	1	1	47	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1999589--1999615	13	2.1	13	100	0	54	48	0	0	51	1.00
1999824--1999864	20	2.0	20	85	0	55	51	0	2	46	1.14
2000183--2000232	14	3.8	13	75	20	50	48	0	0	52	1.00
2000519--2000544	2	13.0	2	100	0	52	50	0	0	50	1.00
2001623--2001656	14	2.5	14	90	4	52	41	0	0	58	0.98
2002151--2002195	14	2.9	16	77	12	58	60	0	0	40	0.97
2002399--2002469	27	2.6	27	77	6	81	47	1	0	50	1.09
2003765--2003836	16	4.5	16	84	10	85	16	19	22	41	1.90
2003764--2003836	32	2.3	32	83	7	103	16	19	23	41	1.90
2004535--2004564	15	1.9	16	93	6	53	40	0	0	60	0.97
2004588--2004645	8	7.4	8	79	11	57	41	1	0	56	1.09
2004578--2004649	31	2.2	32	82	7	92	43	1	0	55	1.08
2004568--2004648	31	2.5	31	84	4	90	44	2	0	53	1.14
2004634--2004727	39	2.4	39	78	7	102	30	2	1	65	1.11
2005250--2005339	6	15.2	6	74	22	66	61	0	2	36	1.09
2005928--2005956	14	2.0	15	93	6	51	41	13	6	37	1.72
2006079--2006116	19	2.0	19	100	0	76	36	5	10	47	1.61
2010966--2011002	14	2.5	15	86	13	58	56	0	0	43	0.99
2010966--2011002	15	2.5	14	91	8	56	56	0	0	43	0.99
2011005--2011043	18	2.2	17	86	4	51	58	2	0	38	1.12
2011550--2011620	25	2.7	27	75	16	76	42	0	2	54	1.14
2012430--2012465	15	2.5	14	90	4	54	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2016621--2016717	28	3.4	28	70	20	76	58	0	2	39	1.10
2016621--2016714	21	4.4	22	68	17	56	59	0	2	38	1.09
2016617--2016712	9	9.5	11	65	24	52	59	0	2	38	1.09
2016668--2016714	24	1.9	25	83	12	62	61	0	2	36	1.08
2017321--2017351	15	2.0	16	93	6	55	38	12	6	41	1.69
2017479--2017518	20	2.0	20	100	0	80	40	5	10	45	1.60
2022059--2022100	19	2.2	20	87	12	61	52	0	0	47	1.00
2022412--2022478	27	2.5	26	73	7	71	49	1	1	47	1.19
2022458--2022484	13	2.1	13	100	0	54	48	0	0	51	1.00
2023080--2023136	28	1.9	28	86	10	78	45	0	0	54	0.99
2023388--2023419	2	16.0	2	100	0	64	50	0	0	50	1.00
2023792--2023856	36	1.9	33	84	12	87	46	1	1	50	1.20
2024508--2024541	14	2.5	14	90	4	52	41	0	0	58	0.98
2025036--2025080	14	2.9	16	77	12	58	60	0	0	40	0.97
2026715--2026753	16	2.4	16	82	0	51	20	15	17	46	1.84
2027468--2027497	15	1.9	16	93	6	53	40	0	0	60	0.97
2027521--2027578	8	7.4	8	79	11	57	41	1	0	56	1.09
2027511--2027582	31	2.2	32	82	7	92	43	1	0	55	1.08
2027501--2027581	31	2.5	31	84	4	90	44	2	0	53	1.14
2027600--2027648	12	4.3	12	75	12	50	28	2	0	69	1.00
2027776--2027816	20	2.0	20	86	9	57	48	0	0	51	1.00
2027899--2027924	13	2.0	13	100	0	52	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2028275--2028366	5	19.2	5	73	12	61	59	2	1	36	1.17
2028280--2028346	28	2.4	28	81	18	86	62	2	0	34	1.10
2028326--2028417	32	2.8	33	83	9	116	55	1	1	42	1.14
2029366--2029395	12	2.4	12	94	5	51	56	3	0	40	1.16
2029369--2029442	32	2.3	32	79	9	80	52	2	2	41	1.29
2029843--2029868	4	6.5	4	100	0	52	46	0	0	53	1.00
2029820--2029881	12	5.2	13	74	18	55	46	0	0	53	1.00
2031424--2031465	21	2.0	21	86	9	59	52	0	2	45	1.13
2031647--2031690	3	14.7	3	100	0	88	34	0	0	65	0.93
2031839--2031877	17	2.2	17	86	4	51	69	0	2	28	1.02
2033750--2033783	16	2.1	16	88	0	50	55	0	2	41	1.15
2034985--2035010	5	5.2	5	100	0	52	19	0	0	80	0.71
2036314--2036365	22	2.2	24	80	16	65	65	0	3	30	1.10
2036480--2036557	22	3.6	21	73	14	68	57	0	0	42	0.98
2036492--2036557	20	3.3	20	73	21	66	59	0	0	40	0.98
2036502--2036557	25	2.3	26	78	12	64	58	0	0	41	0.98
2036489--2036558	18	3.7	18	74	23	63	58	0	0	41	0.98
2046920--2046986	21	3.2	20	76	16	64	68	0	1	29	0.98
2046928--2047092	5	34.8	5	64	20	52	58	0	0	40	1.02
2046920--2046983	11	6.0	11	75	14	62	70	0	1	28	0.97
2046926--2046981	21	2.7	20	82	15	69	73	0	0	26	0.84
2046975--2047045	32	2.3	32	85	9	103	52	1	0	46	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2047339--2047387	17	2.9	17	75	9	55	59	0	4	36	1.17
2047339--2047388	16	3.1	16	79	2	55	60	0	4	36	1.16
2047960--2048021	19	3.4	19	78	10	67	46	0	3	50	1.17
2050096--2050150	22	2.4	23	87	6	85	60	3	0	36	1.15
2050788--2050827	18	2.3	17	83	8	53	62	2	5	30	1.29
2050921--2050962	16	2.5	17	84	7	59	42	0	0	57	0.99
2051165--2051194	15	1.9	16	93	6	53	30	0	0	70	0.88
2053557--2053594	20	1.9	20	100	0	76	36	21	18	23	1.95
2055091--2055226	72	1.9	72	89	3	211	28	10	30	30	1.90
2057013--2057053	21	2.0	21	90	0	64	26	14	4	53	1.61

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