genome.fa.s412.2.7.7.80.10.50.1000.12.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   

This is table  12  of  32  ( 3728 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)
1672205--1672297	29	3.3	29	74	15	70	56	5	0	37	1.22
1673773--1673812	22	1.9	20	90	10	62	62	0	0	37	0.95
1674335--1674370	16	2.2	16	90	9	56	55	2	0	41	1.14
1674426--1674464	2	19.5	2	89	0	60	51	0	0	48	1.00
1675818--1675859	21	2.0	21	90	9	68	42	0	0	57	0.99
1675911--1675966	28	2.0	29	85	3	78	48	1	0	50	1.11
1676751--1676791	13	3.4	12	78	21	50	56	0	0	43	0.99
1676750--1676792	12	3.7	11	81	9	50	55	0	0	44	0.99
1676731--1676791	24	2.6	25	85	12	76	52	0	0	47	1.00
1678586--1678638	21	2.6	20	82	8	63	47	1	0	50	1.12
1680703--1680768	25	2.6	25	80	7	71	39	0	0	60	0.97
1681589--1681652	21	3.1	21	82	6	78	53	1	0	45	1.10
1681699--1681760	9	7.3	9	71	25	55	56	0	0	43	0.99
1681694--1681762	14	5.1	13	84	10	77	55	1	0	43	1.08
1681680--1681775	41	2.3	40	87	3	138	58	1	0	40	1.05
1681694--1681760	5	14.6	5	72	17	56	56	1	0	41	1.08
1683133--1683161	2	14.5	2	100	0	58	51	0	0	48	1.00
1688190--1688234	5	9.4	5	79	15	51	35	0	0	64	0.94
1688189--1688233	23	1.9	24	90	4	74	35	0	0	64	0.94
1688233--1688306	32	2.3	31	84	11	96	51	0	0	48	1.00
1688232--1688306	16	4.8	14	70	22	51	52	0	0	48	1.00
1688280--1688351	26	2.7	26	79	12	67	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1688302--1688354	23	2.2	24	86	3	72	26	0	0	73	0.83
1688311--1688356	18	2.5	19	82	13	60	26	0	0	73	0.83
1688484--1688545	18	3.3	18	70	14	54	48	1	1	48	1.21
1688485--1688577	37	2.6	36	81	8	91	47	1	1	50	1.15
1688747--1688788	18	2.2	20	83	8	52	61	0	0	38	0.96
1689132--1689199	35	1.9	35	82	11	86	54	0	0	45	0.99
1689134--1689208	21	3.5	22	75	12	68	52	1	0	46	1.09
1689605--1689640	18	1.9	19	88	5	56	41	0	0	58	0.98
1690537--1690572	16	2.2	16	95	0	63	25	5	22	47	1.73
1692446--1692480	18	1.9	18	100	0	70	17	8	40	34	1.80
1692450--1692492	18	2.4	18	88	0	59	16	6	34	41	1.75
1693732--1693766	2	17.5	2	100	0	70	51	0	0	48	1.00
1697946--1697984	20	1.9	20	84	5	51	66	5	7	20	1.36
1699037--1699098	24	2.6	25	77	10	67	16	51	4	27	1.64
1700027--1700062	2	18.0	2	100	0	72	0	50	0	50	1.00
1700166--1700192	2	13.5	2	100	0	54	0	51	0	48	1.00
1700711--1700746	10	3.5	10	88	7	54	55	0	0	44	0.99
1700610--1700915	162	1.9	164	87	2	456	50	2	1	45	1.24
1704120--1704167	11	4.2	11	76	7	51	66	0	0	33	0.92
1704553--1704639	28	3.4	25	78	12	86	48	22	6	21	1.74
1704569--1704646	28	2.9	28	86	7	99	48	23	6	21	1.73
1704593--1704647	28	2.0	28	100	0	110	49	21	10	18	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706360--1706405	21	2.1	22	88	4	67	19	28	19	32	1.96
1708925--1708970	24	1.9	24	86	0	65	41	21	8	28	1.83
1708967--1709029	28	2.2	28	88	5	92	55	17	6	20	1.63
1710660--1710717	27	2.1	28	81	9	66	41	0	0	58	0.98
1710660--1710717	28	2.1	27	83	3	71	41	0	0	58	0.98
1712345--1712374	2	15.0	2	92	0	51	46	3	0	50	1.18
1713207--1713255	23	2.1	23	85	14	66	22	2	2	73	1.04
1713231--1713282	16	3.1	17	83	8	54	36	0	0	63	0.95
1713837--1713926	41	2.2	41	91	0	144	37	23	26	12	1.90
1714031--1714077	23	2.0	25	83	8	62	46	0	2	51	1.13
1714059--1714097	18	2.2	18	90	0	60	56	0	0	43	0.99
1714837--1714901	5	13.2	5	80	15	64	38	0	3	58	1.14
1716646--1716673	2	14.0	2	100	0	56	50	0	0	50	1.00
1718126--1718171	20	2.4	19	85	3	56	52	0	0	47	1.00
1718593--1718629	18	2.0	19	94	5	67	16	0	2	81	0.81
1724102--1724134	2	16.5	2	100	0	66	0	51	0	48	1.00
1726782--1726876	6	16.0	6	71	22	67	63	2	0	34	1.07
1726779--1726881	27	3.7	28	76	18	108	62	1	0	35	1.07
1726816--1726880	9	6.8	9	74	19	60	66	0	0	33	0.92
1726782--1726883	43	2.3	42	79	19	100	62	1	0	35	1.06
1726810--1726881	13	5.0	15	77	17	73	65	0	0	34	0.93
1727520--1727574	26	2.1	27	82	3	67	43	0	1	54	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728508--1728538	4	8.0	4	92	7	55	48	0	0	51	1.00
1728775--1728809	12	2.9	12	91	0	52	60	0	0	40	0.97
1729019--1729046	4	7.0	4	100	0	56	25	0	0	75	0.81
1729206--1729239	15	2.3	15	94	0	59	35	0	23	41	1.55
1729809--1729838	2	15.0	2	100	0	60	50	0	0	50	1.00
1733677--1733717	2	20.5	2	100	0	82	51	0	0	48	1.00
1738942--1738993	21	2.5	21	84	6	70	53	0	0	46	1.00
1739051--1739127	17	4.3	18	75	20	63	55	1	0	42	1.07
1739089--1739146	30	1.9	30	83	13	75	58	0	0	41	0.98
1739332--1739378	2	23.5	2	100	0	94	48	0	0	51	1.00
1746490--1746556	26	2.6	25	75	11	64	52	0	0	47	1.00
1746727--1746782	24	2.2	25	81	12	62	37	0	0	62	0.95
1746723--1746774	22	2.4	22	75	9	54	34	0	0	65	0.93
1746998--1747049	28	1.9	28	85	14	74	46	0	1	51	1.12
1747040--1747078	20	1.9	21	89	5	62	71	2	0	25	0.98
1747303--1747363	18	3.3	19	82	13	65	36	0	1	62	1.05
1747305--1747348	19	2.3	19	80	15	54	36	0	2	61	1.09
1747316--1747369	18	2.9	18	82	15	58	35	0	1	62	1.06
1747517--1747583	24	2.8	24	84	2	73	44	1	1	52	1.19
1747974--1747998	13	1.9	13	100	0	50	44	0	0	56	0.99
1752474--1752661	8	23.6	8	69	21	69	62	2	1	33	1.16
1752613--1752654	13	3.5	12	87	9	59	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1752614--1752661	19	2.7	17	87	12	62	70	0	0	29	0.87
1753148--1753180	14	2.4	14	90	10	50	33	0	0	66	0.92
1753145--1753198	26	2.1	26	82	6	65	44	0	0	55	0.99
1753169--1753217	16	2.9	17	77	17	57	53	0	0	46	1.00
1753151--1753218	28	2.5	25	76	11	64	45	0	0	54	0.99
1753655--1753723	30	2.4	31	83	9	83	37	4	4	53	1.41
1753709--1753741	11	2.8	12	86	13	50	39	0	0	60	0.97
1756641--1756681	20	2.1	20	90	4	66	43	0	0	56	0.99
1757178--1757223	11	4.3	11	78	10	51	60	0	0	39	0.97
1757178--1757223	20	2.2	20	84	11	56	60	0	0	39	0.97
1757345--1757389	17	2.6	17	82	6	56	33	4	0	62	1.15
1757389--1757413	6	4.2	6	100	0	50	84	0	0	16	0.63
1758634--1758672	21	1.9	21	94	5	71	43	0	0	56	0.99
1759586--1759629	15	2.9	15	83	12	54	54	0	0	45	0.99
1759614--1759665	23	2.3	23	78	21	56	61	3	0	34	1.14
1760507--1760549	21	2.2	19	87	8	59	44	0	6	48	1.29
1761830--1761854	2	12.5	2	100	0	50	48	0	0	52	1.00
1761984--1762016	14	2.3	15	89	5	50	12	6	0	81	0.85
1763118--1763193	30	2.5	31	72	4	84	43	0	0	56	0.99
1764493--1764540	10	4.7	10	78	2	51	50	0	0	50	1.00
1764522--1764583	22	2.8	21	76	9	61	43	0	0	56	0.99
1764589--1764654	32	2.0	32	86	13	91	57	1	0	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764512--1764676	16	10.1	16	65	17	56	51	1	0	47	1.08
1765039--1765105	9	7.1	9	75	13	55	56	0	0	43	0.99
1765039--1765083	19	2.4	19	85	3	65	60	0	0	40	0.97
1765099--1765154	20	2.9	18	78	17	60	41	0	0	58	0.98
1765078--1765136	14	4.0	15	77	20	54	47	0	0	52	1.00
1765466--1765498	14	2.4	14	90	5	50	27	0	0	72	0.85
1771248--1771285	2	19.0	2	100	0	76	50	0	0	50	1.00
1772537--1772587	2	26.0	2	96	4	95	49	0	0	50	1.00
1772625--1772663	2	20.5	2	84	10	55	51	0	0	48	1.00
1772497--1772663	88	1.9	86	93	2	289	44	10	7	37	1.67

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