genome.fa.s57.2.7.7.80.10.50.1000.13.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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   

This is table  13  of  27  ( 3137 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)
1667356--1667408	28	1.9	27	84	3	70	56	5	1	35	1.34
1667690--1667725	16	2.2	17	90	5	56	55	0	0	44	0.99
1668089--1668176	12	7.3	12	68	10	63	59	0	1	39	1.05
1668639--1668696	27	2.0	29	83	9	75	39	0	5	55	1.22
1669716--1669783	5	13.4	5	70	14	50	35	0	1	63	1.04
1669709--1669782	29	2.6	30	81	12	93	35	0	1	63	1.03
1669721--1669802	40	2.0	40	84	11	105	35	1	2	60	1.17
1669709--1669783	16	5.1	14	74	19	64	34	0	1	64	1.02
1670254--1670943	363	1.9	368	85	4	957	31	11	16	40	1.84
1673969--1673995	2	13.5	2	100	0	54	51	48	0	0	1.00
1682642--1684894	440	5.1	434	79	7	2250	36	18	16	27	1.93
1687612--1687645	18	1.9	18	88	5	52	52	0	0	47	1.00
1687614--1687688	27	2.8	27	78	13	82	53	1	0	45	1.08
1687786--1687815	12	2.5	12	94	0	51	43	0	0	56	0.99
1687965--1688039	31	2.4	32	82	10	93	46	2	0	50	1.15
1687963--1688039	30	2.5	31	85	8	95	48	2	0	49	1.15
1688262--1688304	22	2.0	22	81	9	52	51	0	0	48	1.00
1689635--1689679	19	2.3	21	75	21	53	57	2	0	40	1.11
1689637--1689682	17	2.6	17	78	21	51	56	2	0	41	1.11
1690595--1690666	22	3.4	21	75	16	69	41	0	2	55	1.14
1691082--1691123	14	2.8	16	79	17	54	45	0	0	54	0.99
1692093--1692132	20	2.1	19	86	13	55	60	2	0	37	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1692849--1692898	21	2.4	21	71	15	50	66	0	0	34	0.92
1693084--1693108	13	1.9	13	100	0	50	32	0	0	68	0.90
1693074--1693165	30	3.3	28	75	17	84	42	1	0	56	1.06
1693120--1693161	20	2.1	20	86	0	57	40	0	0	59	0.97
1694082--1694122	21	2.0	21	100	0	82	46	0	0	53	1.00
1694882--1694917	3	12.3	3	94	5	65	69	0	0	30	0.89
1697271--1697368	9	10.7	10	69	18	54	43	0	0	56	0.99
1697271--1697380	18	6.1	18	74	11	73	41	0	0	58	0.98
1697286--1697392	52	2.1	51	80	7	117	42	0	0	55	1.12
1697628--1697661	2	18.0	2	88	11	54	47	0	0	52	1.00
1699005--1699052	15	3.2	15	84	0	60	37	0	0	62	0.95
1705127--1705169	3	14.3	3	100	0	86	32	0	0	67	0.91
1715008--1715032	2	12.5	2	100	0	50	52	48	0	0	1.00
1715506--1715579	26	2.9	25	75	16	80	55	0	0	44	0.99
1718551--1718592	14	3.0	14	76	10	50	47	0	0	52	1.00
1718902--1718970	31	2.3	30	82	12	79	47	5	0	46	1.26
1719035--1719090	25	2.2	25	84	6	69	53	1	1	42	1.21
1719307--1719345	17	2.2	19	86	9	55	51	0	0	48	1.00
1720062--1720112	19	2.6	19	81	9	59	35	0	1	62	1.06
1721021--1721060	21	1.9	21	89	0	62	35	0	5	60	1.19
1721609--1721657	18	2.9	17	76	17	57	63	0	2	34	1.06
1721812--1721845	17	2.0	17	88	0	50	41	0	2	55	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1723938--1723997	29	2.1	29	100	0	120	20	13	21	45	1.85
1731354--1731427	10	7.0	10	71	10	58	45	0	1	52	1.09
1740171--1740216	16	2.9	16	83	0	56	54	8	2	34	1.43
1740646--1740689	16	2.6	16	82	7	52	72	2	0	25	0.96
1748542--1748584	2	22.0	2	95	4	79	48	0	0	51	1.00
1749978--1750015	3	12.7	3	94	0	67	0	34	2	63	1.09
1750676--1750716	12	3.0	14	75	17	50	56	0	0	43	0.99
1750674--1750730	18	3.1	18	73	9	51	57	0	0	42	0.98
1757786--1757819	14	2.2	16	90	10	54	52	0	0	47	1.00
1757851--1757922	5	15.4	5	73	21	50	36	0	0	63	0.94
1757863--1757922	29	2.1	29	84	6	77	38	0	0	61	0.96
1757891--1757931	17	2.3	17	87	8	55	46	0	0	53	1.00
1757835--1757924	11	7.7	11	68	19	58	36	1	1	61	1.11
1757887--1757938	24	2.2	24	86	6	70	44	0	1	53	1.11
1758184--1758214	15	2.1	15	93	0	53	51	6	0	41	1.27
1758202--1758257	26	2.2	24	78	6	58	53	3	1	41	1.29
1759165--1759289	7	15.6	8	65	23	59	41	0	1	56	1.09
1759210--1759307	41	2.3	44	81	13	116	43	1	2	53	1.19
1759229--1759289	32	1.9	32	86	6	88	45	0	1	52	1.10
1759270--1759311	19	2.2	20	91	4	68	35	2	0	61	1.09
1761043--1761094	17	3.1	15	78	15	50	55	0	0	44	0.99
1761310--1761380	10	7.1	10	74	19	51	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1762191--1762250	26	2.3	26	82	5	77	50	3	0	46	1.18
1762848--1762902	29	2.0	28	85	7	76	41	3	1	52	1.29
1763893--1764137	121	2.0	122	91	0	393	31	21	12	34	1.91
1769271--1769305	6	5.8	6	86	0	52	2	17	17	62	1.44
1777817--1777867	25	2.0	25	100	0	102	15	23	27	33	1.95
1781634--1781769	11	12.3	11	67	22	54	41	0	0	58	0.98
1781614--1781763	24	6.2	24	72	19	98	40	0	0	59	0.97
1781726--1781776	22	2.2	22	89	6	75	35	0	0	64	0.94
1782545--1782678	31	4.4	30	71	21	93	58	0	0	41	0.98
1782562--1782714	50	3.0	52	77	10	172	54	0	0	43	1.09
1782566--1782663	25	3.9	25	77	13	87	57	0	0	42	0.99
1782632--1782665	16	2.0	18	88	11	54	61	0	0	38	0.96
1782650--1782703	19	2.8	21	78	21	64	55	1	0	42	1.10
1782543--1782703	11	13.6	12	66	21	81	57	0	0	42	1.03
1782900--1782959	16	3.8	16	73	10	52	33	1	0	65	1.03
1783137--1783194	31	2.0	30	86	10	84	43	0	1	55	1.10
1783137--1783192	30	1.9	28	85	7	76	42	0	1	55	1.10
1784510--1784543	15	2.2	16	89	5	52	26	2	2	67	1.19
1785615--1785641	4	6.8	4	100	0	54	51	22	0	25	1.48
1789601--1789677	40	1.9	40	94	0	136	24	12	29	32	1.93
1790381--1790411	2	15.5	2	100	0	62	48	0	0	51	1.00
1792899--1792933	16	2.1	16	89	5	52	82	2	11	2	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1793342--1793438	45	2.2	45	88	3	142	51	3	0	45	1.17
1793376--1793442	7	9.0	7	75	12	53	50	1	0	47	1.10
1793375--1793409	17	2.0	18	94	5	63	54	0	0	45	0.99
1793509--1793573	32	2.0	33	82	8	80	29	3	1	66	1.16
1795237--1795388	82	1.9	82	81	10	188	35	1	1	61	1.12
1795318--1795350	16	2.1	16	88	11	50	24	0	0	75	0.80
1795320--1795394	30	2.6	30	79	12	77	30	1	0	68	0.98
1795325--1795422	11	8.1	11	70	17	52	33	2	1	63	1.13
1795633--1795659	6	4.5	6	100	0	54	62	0	0	37	0.95
1795883--1795955	35	2.2	33	77	20	80	46	0	0	53	1.00
1797827--1797908	33	2.5	33	82	11	105	56	1	0	42	1.07
1798045--1798157	49	2.2	51	77	19	121	55	0	0	44	0.99
1798130--1798175	13	3.7	13	75	21	53	69	0	0	30	0.89
1798902--1798936	2	17.5	2	100	0	70	48	0	0	51	1.00
1800067--1800095	2	14.5	2	100	0	58	48	0	0	51	1.00
1800641--1800690	22	2.3	23	80	13	61	38	0	0	62	0.96
1800641--1800689	23	2.3	23	82	10	59	38	0	0	61	0.96
1801418--1801496	26	3.0	27	80	10	94	48	0	0	51	1.00
1802935--1802999	33	2.0	33	85	11	89	33	0	0	66	0.92
1802938--1802999	12	5.7	11	80	16	76	32	0	0	67	0.91
1803552--1803582	2	15.5	2	100	0	62	51	0	0	48	1.00
1805532--1805563	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1806067--1806095	2	14.5	2	100	0	58	0	48	0	51	1.00
1806095--1806119	2	12.5	2	100	0	50	48	0	0	52	1.00
1807259--1807295	18	2.1	18	89	0	56	29	8	18	43	1.79
1807637--1807668	14	2.1	16	88	11	50	50	0	0	50	1.00
1810711--1810741	3	10.3	3	92	0	53	61	0	38	0	0.96
1812744--1812772	2	15.0	2	92	7	51	48	0	0	51	1.00
1815050--1815088	16	2.6	15	84	11	53	28	0	2	69	1.02
1815044--1815097	14	3.7	14	78	9	54	31	0	1	66	1.02
1819750--1819783	16	2.2	16	94	5	61	26	14	5	52	1.64
1822431--1822473	20	2.1	21	95	4	79	39	0	0	60	0.97

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