genome.fa.s47.2.7.7.80.10.50.1000.13.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: Scaffold47
Parameters: 2 7 7 80 10 50 1000
Length:  2157611

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

This is table  13  of  15  ( 1735 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)
1702221--1702251	2	15.5	2	100	0	62	48	0	0	51	1.00
1702310--1702346	15	2.6	14	83	8	56	43	0	0	56	0.99
1703202--1703247	20	2.2	22	84	7	60	52	2	0	45	1.13
1704513--1704542	2	15.0	2	100	0	60	50	0	0	50	1.00
1705525--1705580	23	2.3	26	84	9	73	33	1	1	62	1.16
1707300--1707344	23	2.0	23	95	0	81	40	8	2	48	1.47
1707408--1707460	18	2.8	18	82	8	61	66	0	0	33	0.92
1713476--1713508	17	1.9	17	88	11	50	42	0	0	57	0.98
1714056--1714148	18	4.7	19	69	24	59	59	1	2	37	1.17
1714063--1714102	20	1.9	22	90	10	66	65	0	5	30	1.14
1714061--1714113	20	2.8	17	76	23	52	62	0	3	33	1.13
1714337--1714376	20	2.1	19	86	13	55	62	0	0	37	0.95
1715040--1715087	15	3.3	15	81	16	57	35	8	0	56	1.30
1715046--1715104	16	3.9	15	80	10	50	35	6	1	55	1.36
1726167--1726201	16	2.1	18	89	10	56	48	0	11	40	1.39
1726268--1726337	29	2.4	28	77	17	72	51	7	10	31	1.62
1727776--1727806	2	15.5	2	100	0	62	51	0	0	48	1.00
1727996--1728031	12	2.8	13	87	8	56	44	0	0	55	0.99
1729066--1729091	2	13.0	2	100	0	52	0	50	0	50	1.00
1729343--1729376	15	2.1	17	89	10	54	29	2	0	67	1.05
1729470--1729535	31	2.3	31	80	12	79	34	3	1	60	1.21
1729262--1729720	159	2.9	159	89	1	685	45	3	3	47	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1729612--1729670	31	1.9	31	86	6	84	40	0	0	59	0.97
1729698--1729727	8	3.8	8	90	0	51	76	0	0	23	0.78
1730586--1730613	5	5.6	5	100	0	56	17	0	0	82	0.68
1731521--1731578	26	2.5	23	76	17	57	43	0	0	56	0.99
1731524--1731575	25	2.0	26	88	3	79	46	0	0	53	1.00
1731897--1731954	19	3.1	18	78	21	57	58	0	1	39	1.08
1733415--1733464	16	3.2	15	76	18	57	56	0	0	44	0.99
1733726--1733754	13	2.1	14	93	6	51	51	0	0	48	1.00
1734206--1734266	31	2.0	31	84	12	81	47	0	0	52	1.00
1734255--1734293	12	3.4	11	89	7	51	66	0	0	33	0.92
1734857--1734901	17	2.6	18	79	10	58	71	0	0	28	0.87
1735728--1735775	18	2.4	21	80	16	66	56	0	0	43	0.99
1735778--1735819	19	2.2	19	87	8	59	59	7	0	33	1.25
1735980--1736018	13	2.8	13	81	11	51	41	2	5	51	1.38
1736979--1737127	66	2.3	66	91	0	244	32	16	20	30	1.95
1736979--1737169	66	2.9	66	82	4	208	36	15	18	29	1.92
1737313--1737555	124	2.0	124	93	0	414	27	11	22	38	1.89
1739761--1739800	3	13.3	3	94	0	71	0	62	0	37	0.95
1740256--1740280	12	2.1	12	100	0	50	24	40	8	28	1.83
1740927--1740972	23	2.1	21	88	8	65	39	0	0	60	0.97
1743009--1743614	143	4.3	143	82	4	703	27	13	19	39	1.89
1743052--1743617	279	2.0	275	82	7	685	27	12	19	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1746358--1746383	2	13.0	2	100	0	52	50	0	50	0	1.00
1746473--1746498	12	2.2	12	100	0	52	38	15	23	23	1.92
1749579--1749608	3	10.0	3	100	0	60	66	0	33	0	0.92
1750650--1750689	21	1.9	21	85	10	55	47	0	2	50	1.14
1750981--1751007	3	9.0	3	100	0	54	33	0	0	66	0.92
1754727--1754774	9	5.7	9	79	18	50	43	0	0	56	0.99
1754735--1754783	24	2.0	24	84	0	62	38	4	2	55	1.31
1765524--1765571	23	2.0	24	84	11	64	43	0	0	56	0.99
1765558--1765615	20	2.8	21	79	10	66	46	0	0	53	1.00
1765550--1765619	21	3.4	21	74	18	76	44	0	0	55	0.99
1765660--1765684	13	1.9	13	100	0	50	68	0	0	32	0.90
1768633--1768696	22	2.7	22	77	18	67	50	0	0	50	1.00
1770516--1770545	16	1.9	16	93	6	53	63	0	0	36	0.95
1771496--1771550	25	2.2	25	83	0	65	63	0	0	36	0.95
1771519--1771568	16	3.1	16	75	11	57	58	0	0	42	0.98
1771510--1771562	25	2.2	24	89	3	79	54	0	0	45	0.99
1771505--1771576	32	2.1	36	87	10	107	55	0	0	44	0.99
1771502--1771586	32	2.9	29	77	17	86	56	0	0	43	0.99
1771568--1771607	21	1.9	21	90	10	64	47	0	0	52	1.00
1771844--1771882	20	2.0	20	90	9	64	64	0	0	35	0.94
1772088--1772123	18	2.1	17	94	5	63	69	2	0	27	1.02
1777511--1777565	15	3.9	15	73	24	57	41	1	1	54	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777511--1777565	25	2.2	25	93	0	92	41	1	1	54	1.21
1777526--1777565	9	4.7	9	81	12	57	45	0	0	55	0.99
1777669--1777711	14	2.8	15	89	10	61	53	0	0	46	1.00
1777670--1777717	16	3.1	15	85	11	62	47	2	0	50	1.12
1778691--1778744	27	2.0	26	82	10	65	31	3	3	61	1.31
1778970--1779014	22	2.0	22	87	8	65	44	0	2	53	1.13
1779826--1779851	2	13.0	2	100	0	52	0	50	0	50	1.00
1784574--1784626	26	2.0	26	85	7	72	47	0	1	50	1.12
1784573--1784627	21	2.7	20	83	13	67	47	0	1	50	1.11
1784592--1784667	21	3.6	21	76	18	61	46	0	1	52	1.08
1784668--1784707	18	2.2	18	90	0	62	57	2	0	40	1.12
1784858--1784916	22	2.8	22	80	12	70	52	0	0	47	1.00
1784866--1784905	19	2.2	17	91	8	62	55	0	0	45	0.99
1784862--1784909	23	2.1	23	88	3	71	56	0	0	43	0.99
1784913--1785006	47	2.0	47	84	11	124	36	6	2	55	1.37
1789062--1789120	19	3.1	19	97	2	109	57	0	15	27	1.38
1790641--1790700	31	1.9	31	100	0	120	33	23	10	33	1.88
1792417--1792481	17	3.9	17	74	8	53	35	4	0	60	1.18
1793143--1793194	24	2.2	24	89	0	77	11	46	13	28	1.78
1793149--1793197	24	2.0	24	96	0	89	12	42	14	30	1.82
1794649--1794709	30	2.0	31	87	3	88	42	0	0	57	0.98
1802240--1802288	19	2.7	18	80	3	53	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)
1803310--1803344	19	1.9	18	88	11	54	48	0	2	48	1.16
1803473--1803542	26	2.6	26	81	4	68	51	1	0	47	1.09
1803505--1803546	12	3.3	12	81	12	57	42	0	0	57	0.99
1804275--1804307	15	2.2	15	89	10	50	21	0	3	75	0.93
1808537--1808567	5	6.2	5	92	0	53	22	22	0	54	1.44
1809399--1809438	2	20.0	2	100	0	80	50	0	0	50	1.00
1816839--1816869	16	1.9	16	93	0	53	61	0	0	38	0.96
1816848--1816890	20	2.2	20	82	0	50	55	0	0	44	0.99
1820042--1820083	22	1.9	22	90	9	68	61	0	0	38	0.96
1820313--1820368	23	2.5	23	80	19	73	42	0	0	57	0.99
1820326--1820367	22	2.0	22	90	9	70	47	0	0	52	1.00
1820691--1820730	2	20.0	2	100	0	80	50	0	0	50	1.00
1820964--1821018	27	2.0	27	82	6	67	56	0	0	43	0.99
1822569--1822791	108	2.1	108	97	0	419	21	22	26	29	1.99
1828306--1828349	20	2.2	20	95	0	79	40	22	15	20	1.90
1833445--1833488	21	2.0	21	82	4	52	43	4	13	38	1.65
1833786--1833830	24	1.9	23	86	4	63	68	0	22	8	1.16
1834420--1834454	17	2.2	17	90	10	56	48	0	0	51	1.00
1834852--1834879	3	9.3	3	100	0	56	64	0	0	35	0.94
1840026--1840057	2	16.5	2	93	6	57	0	50	0	50	1.00
1840618--1840650	17	1.9	17	88	11	50	48	3	6	42	1.43
1840848--1840877	13	2.2	13	94	5	51	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1840848--1841043	15	13.2	14	71	14	78	56	4	1	38	1.27
1840860--1840961	21	4.7	21	69	14	57	52	4	1	40	1.34
1840835--1840937	15	6.9	15	76	9	63	53	4	1	39	1.33
1840955--1841060	15	6.6	16	76	12	92	61	3	0	34	1.14
1840955--1841065	16	6.9	15	76	10	87	61	4	0	34	1.16
1841002--1841065	17	3.8	17	78	15	62	64	3	0	32	1.10
1844477--1844502	3	8.7	3	100	0	52	65	0	34	0	0.93
1847676--1847714	2	19.5	2	100	0	78	51	0	0	48	1.00
1847849--1847975	67	1.9	66	90	1	200	40	1	3	55	1.25
1863997--1864071	29	2.6	30	82	4	91	30	6	21	41	1.79

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