genome.fa.s144.2.7.7.80.10.50.1000.12.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  12  of  21  ( 2468 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)
1705849--1705888	18	2.2	19	86	4	55	42	0	2	55	1.13
1705856--1705921	27	2.4	27	78	17	73	37	0	0	62	0.96
1705856--1705941	25	3.2	26	79	15	79	40	1	0	58	1.06
1705862--1705954	25	3.8	25	73	13	77	44	2	0	53	1.12
1705870--1705943	27	2.8	24	76	19	69	41	1	0	56	1.07
1706346--1706395	14	3.6	14	79	15	59	42	0	0	58	0.98
1706342--1706402	29	2.3	26	78	15	72	45	0	0	54	1.00
1706343--1706421	30	2.7	30	82	7	92	43	1	0	55	1.07
1706559--1706585	14	1.9	14	100	0	54	59	0	0	40	0.98
1707070--1707156	8	11.1	8	78	17	94	59	1	1	37	1.12
1708738--1708830	30	3.1	30	82	0	123	32	11	21	34	1.90
1713010--1713068	26	2.2	26	96	3	109	54	13	6	25	1.64
1716346--1716415	35	2.0	35	86	5	97	48	14	11	25	1.77
1720619--1720677	8	7.4	8	71	21	52	30	0	0	69	0.89
1721520--1721591	17	4.2	17	74	13	58	58	2	5	33	1.36
1721514--1721617	11	9.5	11	67	23	51	59	2	3	33	1.30
1721551--1721609	28	2.3	24	85	11	73	64	0	1	33	1.04
1721557--1721617	28	2.3	27	82	5	79	62	1	1	34	1.15
1723540--1723573	2	17.0	2	93	0	50	50	5	0	44	1.26
1724218--1724283	26	2.5	25	78	11	69	57	3	1	37	1.23
1725413--1725441	14	2.0	15	93	6	51	37	6	0	55	1.27
1725444--1725495	18	2.8	18	86	11	70	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1725691--1725965	146	1.9	145	83	6	360	44	6	5	43	1.55
1725970--1726005	11	3.3	11	92	0	54	47	0	0	52	1.00
1725965--1726023	27	2.1	28	81	9	68	47	1	1	49	1.21
1725996--1726037	22	1.9	22	90	0	66	54	2	2	40	1.26
1728873--1728903	2	15.5	2	100	0	62	51	0	0	48	1.00
1735132--1735304	83	2.1	84	96	1	321	50	14	12	22	1.75
1746891--1746957	31	2.2	31	97	2	127	47	17	7	26	1.74
1749424--1749455	2	16.0	2	93	0	55	46	0	0	53	1.00
1753727--1753824	29	3.4	29	69	23	71	37	6	6	50	1.52
1753777--1753838	14	4.3	14	79	6	61	43	4	6	45	1.51
1753777--1753831	15	3.7	15	80	4	67	41	3	5	49	1.43
1753775--1753838	29	2.2	29	82	0	83	43	6	6	43	1.54
1756391--1756446	29	1.9	29	82	13	71	67	5	1	25	1.21
1757114--1757173	29	2.1	29	81	12	70	63	0	3	33	1.11
1760687--1760927	122	2.0	118	95	3	428	31	17	10	39	1.84
1763343--1763367	13	1.9	13	100	0	50	36	16	16	32	1.90
1763323--1763388	32	2.0	33	94	2	116	34	12	16	36	1.86
1763462--1763590	52	2.5	52	90	0	204	34	13	17	33	1.90
1769075--1769114	21	1.9	21	84	0	53	65	2	5	27	1.27
1769517--1769555	2	19.5	2	100	0	78	51	0	0	48	1.00
1769646--1769688	19	2.2	20	91	4	70	60	4	4	30	1.37
1771262--1771296	18	2.0	18	88	5	54	45	0	2	51	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1771473--1771581	53	2.1	50	85	8	139	55	7	0	37	1.28
1771783--1771849	21	3.2	21	74	21	61	56	0	1	41	1.08
1771885--1771925	19	2.2	19	86	0	55	73	0	0	26	0.84
1771836--1771908	32	2.3	33	76	11	80	65	1	0	32	1.01
1775182--1775219	17	2.3	17	82	17	53	34	0	5	60	1.19
1775454--1775506	27	2.0	27	85	7	72	33	11	1	52	1.48
1777156--1777197	5	8.4	5	83	0	57	21	16	59	2	1.48
1779856--1779899	20	2.1	21	83	4	54	15	13	6	63	1.49
1780509--1780543	10	3.4	10	92	7	61	91	0	8	0	0.42
1780509--1780543	11	3.3	11	96	4	63	91	0	8	0	0.42
1781854--1782114	142	1.8	143	84	4	357	26	21	18	34	1.96
1792469--1792554	11	7.5	11	69	7	55	4	12	24	58	1.54
1792468--1792554	23	3.8	23	85	0	111	4	12	24	58	1.53
1792604--1792655	24	2.1	26	85	7	72	0	13	5	80	0.88
1792696--1792742	26	1.9	25	83	12	62	2	27	0	70	0.99
1793217--1793268	17	3.1	17	91	0	86	50	9	23	17	1.75
1793433--1793532	8	12.0	8	75	17	53	31	3	0	66	1.07
1793368--1793501	62	2.2	62	95	2	243	32	4	0	62	1.15
1794585--1794614	13	2.3	13	94	0	51	0	10	0	90	0.47
1796583--1796621	15	2.4	16	87	8	53	66	2	7	23	1.30
1796626--1796685	30	2.0	30	87	3	86	36	0	3	60	1.14
1798161--1798212	27	1.9	27	92	0	86	46	21	5	26	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1798830--1798862	17	1.9	17	93	0	57	3	21	24	51	1.62
1799068--1799113	19	2.4	19	88	0	74	15	0	10	73	1.08
1799748--1799815	26	2.6	25	76	13	75	52	0	0	47	1.00
1799775--1799819	20	2.2	20	84	7	56	51	0	0	48	1.00
1800309--1800351	18	2.4	19	80	11	63	69	0	0	30	0.88
1801597--1801623	2	13.5	2	100	0	54	48	0	0	51	1.00
1803425--1803457	17	1.9	17	93	0	57	3	21	24	51	1.62
1803662--1803707	16	2.7	17	83	6	58	10	2	8	78	1.05
1803681--1803716	19	1.9	19	88	5	56	19	0	8	72	1.10
1804300--1804385	11	7.5	11	69	7	55	4	12	24	58	1.54
1804299--1804385	23	3.8	23	85	0	111	4	12	24	58	1.53
1804435--1804486	24	2.1	26	85	7	72	0	13	5	80	0.88
1804528--1804574	26	1.9	25	83	12	62	2	27	0	70	0.99
1804982--1805053	34	2.1	34	82	5	83	22	11	16	50	1.77
1805049--1805100	17	3.1	17	91	0	86	50	9	23	17	1.75
1805211--1805322	33	3.6	32	69	20	103	29	5	0	65	1.15
1805209--1805332	58	2.2	58	92	4	209	30	4	0	64	1.14
1806396--1806425	12	2.5	12	94	0	51	0	13	0	86	0.57
1808032--1808064	17	1.9	17	93	0	57	3	21	24	51	1.62
1808274--1808312	17	2.2	17	86	4	51	10	2	7	79	1.02
1808990--1809038	20	2.4	22	86	10	68	51	0	0	48	1.00
1809144--1809259	30	3.9	29	73	18	98	56	0	5	37	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809434--1809467	2	17.5	2	93	6	61	52	0	0	47	1.00
1809518--1809570	6	9.0	6	74	25	51	67	0	0	32	0.91
1809513--1809568	22	2.7	22	81	10	64	64	0	0	35	0.94
1809530--1809573	19	2.4	18	81	7	61	68	0	0	31	0.90
1811820--1811886	11	5.5	12	80	13	75	50	0	0	49	1.00
1811808--1811920	38	2.9	39	68	12	99	45	4	0	50	1.22
1811828--1811883	14	4.1	14	84	9	71	55	0	0	44	0.99
1811828--1811883	27	2.0	28	89	3	87	55	0	0	44	0.99
1812032--1812073	22	1.9	22	90	0	66	28	7	7	57	1.52
1812204--1812239	2	18.0	2	94	0	63	50	2	0	47	1.15
1813631--1813676	22	2.1	22	84	8	58	60	0	2	36	1.09
1813968--1814070	49	2.1	49	82	7	120	48	4	3	42	1.42
1817429--1817461	17	1.9	17	93	0	57	3	21	24	51	1.62
1818383--1818431	21	2.3	21	89	6	73	53	0	0	46	1.00
1818537--1818652	30	3.9	29	73	18	98	56	0	5	37	1.28
1818827--1818862	2	18.5	2	94	5	65	52	0	0	47	1.00
1818913--1818965	6	9.0	6	74	25	51	67	0	0	32	0.91
1818908--1818963	22	2.7	22	81	10	64	64	0	0	35	0.94
1818925--1818968	19	2.4	18	81	7	61	68	0	0	31	0.90
1821217--1821283	11	5.5	12	80	13	75	50	0	0	49	1.00
1821205--1821317	38	2.9	39	68	12	99	45	4	0	50	1.22
1821225--1821280	14	4.1	14	84	9	71	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821225--1821280	27	2.0	28	89	3	87	55	0	0	44	0.99
1821429--1821469	21	1.9	22	90	5	66	29	7	7	56	1.54
1821600--1821633	2	17.0	2	93	0	59	50	2	0	47	1.16
1823026--1823071	22	2.1	22	84	8	58	60	0	2	36	1.09
1823363--1823465	49	2.1	49	82	7	120	48	4	3	42	1.42
1825723--1825754	16	2.0	16	93	0	55	78	0	21	0	0.76
1826085--1826109	12	2.1	12	100	0	50	60	8	0	32	1.26
1827235--1827327	43	2.2	43	77	11	104	49	6	0	44	1.28
1833244--1833284	2	21.0	2	87	5	57	48	0	2	48	1.14
1833740--1833789	19	2.5	20	78	15	59	56	6	4	34	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21