genome.fa.s364.2.7.7.80.10.50.1000.8.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: Scaffold364
Parameters: 2 7 7 80 10 50 1000
Length:  2089110

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

This is table  8  of  10  ( 1160 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)
1558830--1558854	13	1.9	13	100	0	50	92	8	0	0	0.40
1571996--1572052	25	2.2	27	78	9	66	42	1	3	52	1.28
1574581--1574649	33	2.1	33	97	0	129	52	13	2	31	1.55
1576898--1576937	3	13.3	3	94	0	71	30	0	2	67	1.04
1582511--1582553	2	21.5	2	95	0	77	2	0	46	51	1.13
1584956--1585017	17	3.8	17	78	16	60	58	0	1	40	1.08
1584951--1585023	27	2.7	26	74	18	67	56	0	2	41	1.14
1584971--1585028	24	2.5	24	78	16	59	58	0	3	37	1.15
1591858--1592035	75	2.4	75	80	1	196	28	19	24	28	1.99
1592542--1592658	26	4.5	26	71	12	87	22	17	36	23	1.95
1592423--1592705	78	3.6	78	77	0	287	22	15	33	28	1.94
1592578--1592828	124	2.0	124	82	0	304	21	17	33	27	1.96
1592664--1592751	46	1.9	46	88	4	133	20	15	31	31	1.94
1592702--1593004	78	3.9	77	78	8	319	23	16	32	27	1.96
1592506--1592907	202	2.0	202	82	0	491	22	17	32	27	1.96
1592702--1593003	156	1.9	154	84	3	399	23	16	32	27	1.96
1594335--1594562	75	3.1	74	73	7	217	29	17	22	29	1.97
1594336--1594621	150	1.9	150	81	1	349	31	17	21	29	1.96
1596318--1596363	22	2.1	22	95	0	83	41	0	0	58	0.98
1596339--1596373	18	1.9	19	88	11	56	42	0	0	57	0.99
1596311--1596374	22	3.0	22	80	11	78	43	0	0	56	0.99
1596314--1596418	38	2.8	37	80	14	99	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)
1596400--1596442	22	1.9	23	86	13	63	48	2	0	48	1.14
1596402--1596462	29	2.1	28	90	3	95	50	1	0	47	1.10
1596489--1596529	19	2.1	19	90	4	64	58	0	0	41	0.98
1596497--1596541	18	2.5	19	76	20	51	55	0	0	44	0.99
1597098--1597220	29	4.2	28	78	12	83	57	0	0	40	1.10
1597118--1597226	58	1.9	57	86	5	157	59	0	0	39	1.04
1597183--1597238	23	2.3	25	84	6	80	62	0	0	37	0.95
1597183--1597239	24	2.3	26	82	14	77	61	0	0	38	0.96
1598547--1598576	2	15.0	2	92	0	51	46	0	53	0	1.00
1598543--1598576	12	2.8	12	95	0	59	44	0	55	0	0.99
1599183--1599387	106	1.9	106	100	0	410	27	16	14	41	1.87
1603363--1603551	94	2.0	94	98	0	369	25	10	21	42	1.84
1603740--1603767	14	2.0	14	100	0	56	64	0	0	35	0.94
1604867--1604915	22	2.3	22	82	3	55	38	0	0	61	0.96
1612227--1612261	2	17.5	2	100	0	70	51	0	48	0	1.00
1613031--1613105	28	2.7	28	74	15	75	33	1	0	65	1.01
1613172--1613216	15	2.9	15	83	6	63	60	0	0	40	0.97
1614033--1614073	12	3.6	12	80	12	59	46	0	0	53	1.00
1614033--1614077	22	2.0	22	100	0	90	44	0	0	55	0.99
1616577--1616621	15	2.9	16	80	3	56	8	13	33	44	1.75
1618727--1618777	23	2.2	24	85	3	68	54	0	0	45	0.99
1621638--1621701	24	2.6	25	77	18	73	39	0	3	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621746--1621780	18	1.9	18	88	0	52	54	0	0	45	0.99
1621758--1621834	36	2.1	38	83	9	97	63	1	0	35	1.03
1621754--1621833	25	3.2	24	76	16	74	63	1	0	35	1.02
1621768--1621805	13	3.0	13	82	17	53	68	0	0	31	0.90
1621758--1621831	11	6.5	11	72	25	55	64	1	0	33	1.02
1631971--1632047	5	15.2	5	76	16	70	37	0	0	62	0.96
1631956--1632047	30	3.1	28	79	20	98	38	1	0	60	1.04
1641315--1641363	24	2.1	23	85	11	64	44	0	2	53	1.12
1642167--1642198	2	16.0	2	100	0	64	50	0	0	50	1.00
1642932--1642974	23	1.9	22	85	4	59	51	0	0	48	1.00
1642957--1642995	19	2.0	21	85	14	57	48	0	0	51	1.00
1642965--1643019	25	2.1	24	87	12	74	36	0	0	63	0.95
1642979--1643028	25	2.1	25	85	7	68	36	0	2	62	1.07
1643132--1643190	21	2.8	20	79	18	66	67	3	0	28	1.06
1644152--1644245	47	2.0	47	100	0	188	53	6	4	36	1.46
1644449--1644481	17	1.9	17	88	11	50	33	0	3	63	1.10
1652047--1652092	2	23.0	2	90	0	74	54	0	0	45	0.99
1658463--1658499	18	2.0	20	89	10	60	54	0	0	45	1.00
1662333--1662392	8	7.3	9	83	12	60	58	0	0	41	0.98
1663053--1663078	13	2.0	13	100	0	52	69	0	0	30	0.89
1663021--1663074	23	2.2	26	83	12	69	62	0	1	35	1.06
1663011--1663075	27	2.4	29	75	17	77	64	0	1	33	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1665116--1665158	23	1.9	23	90	4	70	30	2	13	53	1.53
1665252--1665290	17	2.2	18	86	13	55	66	2	0	30	1.05
1665617--1665665	21	2.2	23	85	7	66	36	0	2	61	1.08
1665611--1665674	21	3.2	19	76	22	60	34	3	1	60	1.22
1666541--1666585	21	2.1	22	84	12	58	40	8	2	48	1.47
1668083--1668162	31	2.6	30	78	6	88	57	2	0	40	1.12
1668191--1668289	33	3.0	32	86	5	144	46	5	4	44	1.44
1671475--1671542	28	2.4	27	81	13	75	63	7	0	29	1.21
1671998--1672024	3	9.0	3	100	0	54	33	0	0	66	0.92
1672514--1672561	21	2.3	21	83	13	64	54	0	0	45	0.99
1672529--1672562	14	2.3	15	90	5	52	52	0	0	47	1.00
1673304--1673348	21	2.1	21	88	8	65	46	0	0	53	1.00
1673810--1673844	16	2.2	16	89	0	52	51	22	0	25	1.48
1673942--1673976	2	17.5	2	100	0	70	48	0	0	51	1.00
1679468--1679575	50	2.2	50	84	14	136	45	0	0	54	0.99
1680828--1680853	2	13.0	2	100	0	52	50	0	0	50	1.00
1692756--1692832	39	2.1	39	80	11	90	46	1	0	51	1.09
1693790--1693822	3	11.0	3	93	0	57	30	0	3	66	1.06
1694602--1694640	18	2.2	17	86	13	53	53	0	5	41	1.23
1695679--1695728	12	4.2	12	85	12	68	30	2	0	68	1.01
1695678--1695722	22	2.0	23	91	4	74	28	2	0	68	1.01
1700849--1700906	27	2.1	27	81	6	64	58	3	5	32	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1700993--1701040	17	2.9	17	87	6	64	56	0	0	43	0.99
1701316--1701404	44	2.0	45	91	2	144	46	17	3	32	1.65
1701656--1701687	2	16.0	2	93	0	55	46	0	0	53	1.00
1711046--1711086	2	20.5	2	84	0	55	43	2	4	48	1.37
1711368--1711427	2	30.0	2	89	0	93	46	1	3	48	1.28
1711568--1711595	2	14.0	2	100	0	56	50	0	0	50	1.00
1713274--1713299	2	13.0	2	100	0	52	50	0	0	50	1.00
1713285--1713375	28	3.1	27	73	17	76	45	3	7	43	1.49
1713672--1713719	16	2.9	16	80	17	53	33	2	0	64	1.05
1715574--1715605	3	11.0	3	93	6	57	34	0	0	65	0.93
1715928--1715958	6	5.2	6	100	0	62	16	0	0	83	0.64
1717940--1717964	2	12.5	2	100	0	50	48	0	0	52	1.00
1720233--1720268	2	18.0	2	100	0	72	0	50	0	50	1.00
1723316--1723356	2	20.5	2	100	0	82	48	0	0	51	1.00
1723393--1723439	7	6.6	7	90	4	76	27	0	0	72	0.85
1725255--1725304	10	5.2	10	83	9	52	34	0	0	66	0.92
1725261--1725299	20	1.9	21	89	5	62	30	0	0	69	0.89
1725255--1725331	20	4.1	18	76	12	59	37	0	0	62	0.96
1725296--1725330	18	1.9	18	88	11	54	45	0	0	54	0.99
1725260--1725335	37	2.1	37	82	9	93	36	0	0	63	0.95
1725262--1725337	19	4.1	18	68	28	52	38	0	0	61	0.96
1725730--1725773	21	2.0	23	86	8	65	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1725711--1725781	32	2.2	33	89	2	108	53	0	0	46	1.00
1725937--1725964	2	14.0	2	100	0	56	50	0	0	50	1.00
1728293--1728340	24	2.0	24	95	0	87	39	20	22	16	1.92
1738289--1738318	13	2.4	13	94	5	53	46	0	0	53	1.00
1747079--1747113	18	2.1	16	89	10	52	48	2	0	48	1.16
1747103--1747157	12	4.2	13	77	13	58	58	0	0	41	0.98
1748323--1748355	16	2.0	17	88	5	50	48	0	0	51	1.00
1748796--1748831	15	2.4	14	86	13	54	25	0	0	75	0.81
1748825--1748904	16	5.0	16	69	21	60	47	1	0	51	1.08
1748826--1748904	32	2.5	32	95	0	140	48	1	0	50	1.08

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