genome.fa.s94.2.7.7.80.10.50.1000.10.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: Scaffold94
Parameters: 2 7 7 80 10 50 1000
Length:  2274668

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

This is table  10  of  13  ( 1461 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)
1663844--1663896	25	2.1	25	89	6	81	13	1	7	77	1.06
1663853--1663896	14	3.2	13	84	12	52	11	2	9	77	1.08
1664171--1664207	2	18.5	2	100	0	74	51	0	0	48	1.00
1664253--1664278	9	2.9	9	100	0	52	42	23	11	23	1.86
1668992--1669048	26	2.2	25	84	9	78	28	5	8	57	1.50
1669489--1669515	14	1.9	14	100	0	54	37	0	11	51	1.37
1671255--1671733	155	3.1	152	76	8	448	24	15	18	41	1.90
1678941--1679370	82	5.3	81	77	5	348	32	10	25	31	1.89
1678941--1679371	163	2.6	162	80	4	436	32	10	25	31	1.89
1679118--1679428	163	1.9	163	80	2	365	32	10	25	31	1.90
1682008--1682054	20	2.3	20	85	10	60	31	17	10	40	1.83
1684433--1684559	52	2.5	52	86	1	175	29	14	14	40	1.86
1688961--1689011	9	5.8	9	86	13	79	90	0	7	1	0.53
1688964--1689022	18	3.3	17	84	15	75	86	1	6	5	0.76
1688961--1689011	1	51.0	1	80	0	57	90	0	7	1	0.53
1689699--1689882	67	2.8	67	81	5	212	25	19	10	44	1.83
1690739--1690820	40	2.0	40	83	4	103	24	23	12	40	1.88
1691022--1691189	67	2.5	67	83	3	187	21	19	13	46	1.83
1694195--1694253	29	2.0	29	86	0	82	40	3	22	33	1.70
1694143--1694351	106	2.0	106	94	0	364	35	8	18	38	1.80
1694294--1694440	29	5.0	29	78	11	133	38	2	18	40	1.65
1694740--1695140	153	2.6	150	80	8	395	24	14	17	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1703651--1703718	12	5.4	12	76	13	66	47	0	1	51	1.09
1704168--1704197	2	15.0	2	92	0	51	3	50	0	46	1.18
1709477--1709540	33	1.9	33	84	6	85	45	3	4	46	1.39
1709575--1709629	29	1.9	29	85	3	76	32	3	9	54	1.49
1709901--1710038	50	2.8	50	87	0	195	34	18	19	28	1.95
1714422--1714659	50	4.8	50	88	0	332	32	16	20	30	1.95
1718402--1718434	7	4.7	7	96	0	57	78	0	0	21	0.75
1718402--1718450	14	3.4	14	85	5	62	73	2	2	22	1.04
1718737--1718769	13	2.4	14	90	5	50	18	0	6	75	1.00
1719012--1719041	15	2.1	14	93	6	51	33	0	3	63	1.11
1719169--1719224	14	3.7	15	83	7	60	30	0	0	69	0.89
1719145--1719224	23	3.6	23	75	8	67	31	0	1	67	0.99
1719177--1719212	14	2.5	15	95	4	65	22	0	0	77	0.76
1721997--1722053	27	2.1	27	93	3	98	36	1	10	50	1.47
1722186--1722221	18	1.9	19	88	5	56	30	2	5	61	1.33
1723125--1723196	33	2.2	33	79	0	81	36	27	4	31	1.76
1725956--1725994	15	2.7	15	88	4	53	76	0	17	5	0.96
1725953--1725993	21	2.0	21	85	9	57	75	0	19	4	0.98
1728515--1728553	20	2.0	20	84	0	51	56	7	17	17	1.64
1728647--1728695	22	2.2	22	85	3	62	6	16	20	57	1.60
1728823--1728864	22	1.9	22	100	0	84	9	16	30	42	1.80
1729441--1729494	24	2.3	24	83	3	65	18	0	3	77	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1729445--1729485	22	1.9	22	85	5	57	19	0	2	78	0.87
1730053--1730211	85	1.9	84	84	1	210	35	18	28	17	1.94
1729983--1730338	128	2.8	128	84	3	443	35	17	28	17	1.93
1729971--1731179	42	28.7	42	72	8	550	34	18	27	19	1.95
1730445--1730537	43	2.2	43	86	5	127	41	20	23	13	1.88
1730457--1730592	43	3.2	42	78	12	111	36	18	26	18	1.94
1729977--1730675	211	3.3	209	77	7	662	35	17	27	19	1.94
1730249--1730749	211	2.4	208	78	6	537	33	18	27	20	1.96
1730237--1731091	337	2.5	336	80	3	898	34	18	27	19	1.95
1732920--1732968	16	3.1	15	78	21	55	22	0	0	77	0.77
1733744--1733977	127	1.8	127	91	0	387	33	18	29	17	1.95
1733449--1734481	169	6.1	168	72	10	603	34	18	28	19	1.95
1733453--1734356	253	3.6	250	75	7	725	33	18	28	19	1.95
1734197--1734397	83	2.4	84	78	7	205	37	18	24	19	1.94
1733443--1734481	42	24.7	42	73	8	541	34	18	28	19	1.95
1748000--1748034	17	2.1	17	94	0	61	11	14	20	54	1.70
1748709--1748747	14	2.5	16	84	16	55	20	0	5	74	1.01
1748699--1748767	31	2.2	32	80	10	81	24	2	2	69	1.16
1756789--1756847	21	2.7	22	77	17	68	40	0	0	59	0.97
1758878--1758913	2	18.0	2	94	0	63	50	2	0	47	1.15
1763930--1763967	7	5.3	7	87	6	58	42	18	0	39	1.50
1771848--1771891	20	2.1	21	87	4	63	34	20	6	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1772488--1772806	52	6.3	51	75	8	177	36	16	24	22	1.94
1772888--1773307	32	13.2	31	80	5	376	23	16	28	31	1.96
1772888--1773307	128	3.3	126	81	4	466	23	16	28	31	1.96
1773233--1773922	30	23.2	29	75	11	281	34	13	27	24	1.93
1773324--1773423	32	3.0	33	80	4	121	41	11	27	21	1.86
1773289--1773686	57	6.8	61	74	12	198	37	12	26	22	1.90
1773289--1773656	29	12.5	29	78	6	217	37	12	26	23	1.91
1773685--1774057	60	6.2	60	76	6	245	31	14	29	24	1.94
1773685--1774057	90	4.1	91	75	6	312	31	14	29	24	1.94
1773685--1774057	30	12.4	30	77	5	160	31	14	29	24	1.94
1782700--1782749	19	2.5	20	84	12	68	46	4	18	32	1.67
1782809--1782863	20	2.7	20	94	2	92	30	20	10	38	1.87
1783378--1783427	20	2.5	20	90	3	75	36	16	14	34	1.88
1783473--1783502	13	2.3	13	100	0	60	33	16	13	36	1.88
1783456--1783524	33	2.1	33	89	5	104	31	11	18	37	1.87
1789350--1789388	13	3.0	13	92	0	51	33	12	12	41	1.82
1791266--1791307	22	1.9	22	95	0	75	38	4	35	21	1.75
1791899--1791925	13	2.1	13	100	0	54	29	14	14	40	1.86
1791991--1792040	13	4.3	13	72	27	58	34	14	16	36	1.88
1791991--1792062	33	2.2	33	97	0	135	33	11	18	37	1.86
1791977--1792060	20	4.6	19	75	22	81	34	11	17	35	1.87
1795471--1795797	165	2.0	165	80	6	374	29	11	7	51	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1795527--1796059	165	3.2	165	77	6	497	30	10	7	50	1.66
1797516--1797809	138	2.1	139	84	3	378	37	8	11	42	1.73
1804957--1805015	21	2.9	21	89	2	93	38	18	22	20	1.93
1806054--1806107	20	2.7	20	82	8	65	31	18	11	38	1.86
1807503--1807589	13	6.5	13	68	16	52	72	2	19	5	1.16
1808826--1809154	35	9.3	35	80	2	300	23	20	10	44	1.83
1808834--1809163	105	3.1	105	82	2	392	23	21	10	45	1.82
1813711--1813745	16	2.2	16	89	0	52	31	17	11	40	1.85
1814756--1814811	10	5.5	10	74	8	51	82	1	14	1	0.84
1814776--1814802	13	2.1	13	100	0	54	92	0	7	0	0.38
1817663--1817751	42	2.1	42	95	0	160	29	19	14	37	1.91
1818041--1818116	25	3.0	25	76	17	77	51	0	0	48	1.00
1818813--1818858	19	2.4	18	82	7	56	54	2	4	39	1.32
1821050--1821094	22	2.0	22	83	8	56	46	0	6	46	1.29
1824940--1824968	3	9.7	3	100	0	58	34	31	0	34	1.58
1825014--1825043	2	15.0	2	100	0	60	50	0	0	50	1.00
1831050--1831078	14	2.1	14	93	6	51	27	3	6	62	1.37
1831271--1831319	2	25.0	2	95	4	91	48	0	0	51	1.00
1831633--1831672	17	2.4	17	87	4	55	75	0	2	22	0.93
1832839--1832897	30	2.0	30	83	6	75	42	1	1	54	1.20
1833245--1833277	17	1.9	17	88	11	50	18	6	9	66	1.40
1833411--1833450	20	2.0	20	90	4	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)
1834054--1834080	13	2.1	13	100	0	54	44	0	14	40	1.46
1836794--1836864	36	2.0	36	94	0	124	36	22	7	33	1.81
1839867--1839904	2	19.0	2	94	0	67	0	47	0	52	1.00
1840931--1841051	61	2.0	60	95	1	215	42	18	10	28	1.83
1844753--1844793	22	1.9	21	90	5	64	36	12	0	51	1.40
1854974--1854998	13	1.9	13	100	0	50	44	16	8	32	1.76
1854954--1855016	33	1.9	33	87	6	92	41	14	15	28	1.87
1855037--1855089	19	2.8	19	91	0	88	39	15	11	33	1.83
1862418--1862463	14	3.4	14	80	14	51	63	6	0	30	1.20
1863270--1863333	24	2.5	26	85	12	80	57	6	1	34	1.33

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